python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RLF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RLF-K562-ENCSR718SDE.bestfold.profile.pattern_0.n_2283.CWM.meme motif-alignments-all-vs-all/RLF/RLF-201-vs-RLF-K562-ENCSR718SDE.bestfold.profile.pattern_0.n_2283.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RLF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RLF-K562-ENCSR718SDE.bestfold.profile.pattern_1.n_412.CWM.meme motif-alignments-all-vs-all/RLF/RLF-201-vs-RLF-K562-ENCSR718SDE.bestfold.profile.pattern_1.n_412.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RLF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RLF-K562-ENCSR718SDE.bestfold.profile.pattern_2.n_392.CWM.meme motif-alignments-all-vs-all/RLF/RLF-201-vs-RLF-K562-ENCSR718SDE.bestfold.profile.pattern_2.n_392.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RLF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RLF-K562-ENCSR718SDE.bestfold.profile.pattern_3.n_379.CWM.meme motif-alignments-all-vs-all/RLF/RLF-201-vs-RLF-K562-ENCSR718SDE.bestfold.profile.pattern_3.n_379.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RLF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RLF-K562-ENCSR718SDE.bestfold.profile.pattern_4.n_270.CWM.meme motif-alignments-all-vs-all/RLF/RLF-201-vs-RLF-K562-ENCSR718SDE.bestfold.profile.pattern_4.n_270.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RLF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RLF-K562-ENCSR718SDE.bestfold.profile.pattern_5.n_206.CWM.meme motif-alignments-all-vs-all/RLF/RLF-201-vs-RLF-K562-ENCSR718SDE.bestfold.profile.pattern_5.n_206.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RLF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RLF-K562-ENCSR718SDE.bestfold.profile.pattern_6.n_193.CWM.meme motif-alignments-all-vs-all/RLF/RLF-201-vs-RLF-K562-ENCSR718SDE.bestfold.profile.pattern_6.n_193.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RLF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RLF-K562-ENCSR718SDE.bestfold.profile.pattern_7.n_149.CWM.meme motif-alignments-all-vs-all/RLF/RLF-201-vs-RLF-K562-ENCSR718SDE.bestfold.profile.pattern_7.n_149.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RLF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RLF-K562-ENCSR718SDE.bestfold.profile.pattern_8.n_82.CWM.meme motif-alignments-all-vs-all/RLF/RLF-201-vs-RLF-K562-ENCSR718SDE.bestfold.profile.pattern_8.n_82.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RLF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RLF-K562-ENCSR718SDE.bestfold.profile.pattern_9.n_20.CWM.meme motif-alignments-all-vs-all/RLF/RLF-201-vs-RLF-K562-ENCSR718SDE.bestfold.profile.pattern_9.n_20.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_0.n_2618.CWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_0.n_2618.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_10.n_35.CWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_10.n_35.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_1.n_2597.CWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_1.n_2597.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_2.n_1307.CWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_2.n_1307.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_3.n_376.CWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_3.n_376.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_4.n_320.CWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_4.n_320.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_5.n_249.CWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_5.n_249.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_6.n_205.CWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_6.n_205.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_7.n_198.CWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_7.n_198.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_8.n_104.CWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_8.n_104.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_9.n_78.CWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_9.n_78.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_0.n_1553.CWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_0.n_1553.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_10.n_22.CWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_10.n_22.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_1.n_1193.CWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_1.n_1193.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_2.n_1179.CWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_2.n_1179.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_3.n_903.CWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_3.n_903.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_4.n_461.CWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_4.n_461.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_5.n_224.CWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_5.n_224.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_6.n_142.CWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_6.n_142.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_7.n_129.CWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_7.n_129.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_8.n_125.CWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_8.n_125.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_9.n_56.CWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_9.n_56.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_0.n_2618.CWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_0.n_2618.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_10.n_35.CWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_10.n_35.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_1.n_2597.CWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_1.n_2597.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_2.n_1307.CWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_2.n_1307.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_3.n_376.CWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_3.n_376.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_4.n_320.CWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_4.n_320.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_5.n_249.CWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_5.n_249.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_6.n_205.CWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_6.n_205.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_7.n_198.CWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_7.n_198.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_8.n_104.CWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_8.n_104.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_9.n_78.CWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_9.n_78.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_0.n_1553.CWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_0.n_1553.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_10.n_22.CWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_10.n_22.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_1.n_1193.CWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_1.n_1193.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_2.n_1179.CWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_2.n_1179.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_3.n_903.CWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_3.n_903.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_4.n_461.CWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_4.n_461.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_5.n_224.CWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_5.n_224.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_6.n_142.CWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_6.n_142.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_7.n_129.CWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_7.n_129.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_8.n_125.CWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_8.n_125.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_9.n_56.CWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_9.n_56.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/YY2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_0.n_5039.CWM.meme motif-alignments-all-vs-all/YY2/YY2-201-vs-YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_0.n_5039.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/YY2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_1.n_596.CWM.meme motif-alignments-all-vs-all/YY2/YY2-201-vs-YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_1.n_596.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/YY2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_2.n_313.CWM.meme motif-alignments-all-vs-all/YY2/YY2-201-vs-YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_2.n_313.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/YY2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_3.n_220.CWM.meme motif-alignments-all-vs-all/YY2/YY2-201-vs-YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_3.n_220.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/YY2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_4.n_198.CWM.meme motif-alignments-all-vs-all/YY2/YY2-201-vs-YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_4.n_198.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/YY2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_5.n_144.CWM.meme motif-alignments-all-vs-all/YY2/YY2-201-vs-YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_5.n_144.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/YY2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_6.n_52.CWM.meme motif-alignments-all-vs-all/YY2/YY2-201-vs-YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_6.n_52.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/YY2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_7.n_44.CWM.meme motif-alignments-all-vs-all/YY2/YY2-201-vs-YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_7.n_44.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLIS2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_0.n_16134.CWM.meme motif-alignments-all-vs-all/GLIS2/GLIS2-201-vs-GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_0.n_16134.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLIS2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_10.n_22.CWM.meme motif-alignments-all-vs-all/GLIS2/GLIS2-201-vs-GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_10.n_22.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLIS2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_1.n_888.CWM.meme motif-alignments-all-vs-all/GLIS2/GLIS2-201-vs-GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_1.n_888.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLIS2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_2.n_765.CWM.meme motif-alignments-all-vs-all/GLIS2/GLIS2-201-vs-GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_2.n_765.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLIS2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_3.n_629.CWM.meme motif-alignments-all-vs-all/GLIS2/GLIS2-201-vs-GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_3.n_629.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLIS2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_4.n_306.CWM.meme motif-alignments-all-vs-all/GLIS2/GLIS2-201-vs-GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_4.n_306.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLIS2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_5.n_28.CWM.meme motif-alignments-all-vs-all/GLIS2/GLIS2-201-vs-GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_5.n_28.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLIS2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_6.n_25.CWM.meme motif-alignments-all-vs-all/GLIS2/GLIS2-201-vs-GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_6.n_25.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLIS2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_7.n_25.CWM.meme motif-alignments-all-vs-all/GLIS2/GLIS2-201-vs-GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_7.n_25.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_2.n_587.CWM.meme motif-alignments-all-vs-all/SCRT2/SCRT2-201-vs-SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_2.n_587.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_3.n_444.CWM.meme motif-alignments-all-vs-all/SCRT2/SCRT2-201-vs-SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_3.n_444.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_4.n_275.CWM.meme motif-alignments-all-vs-all/SCRT2/SCRT2-201-vs-SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_4.n_275.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_5.n_184.CWM.meme motif-alignments-all-vs-all/SCRT2/SCRT2-201-vs-SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_5.n_184.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_6.n_157.CWM.meme motif-alignments-all-vs-all/SCRT2/SCRT2-201-vs-SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_6.n_157.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_7.n_128.CWM.meme motif-alignments-all-vs-all/SCRT2/SCRT2-201-vs-SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_7.n_128.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_8.n_92.CWM.meme motif-alignments-all-vs-all/SCRT2/SCRT2-201-vs-SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_8.n_92.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_9.n_66.CWM.meme motif-alignments-all-vs-all/SCRT2/SCRT2-201-vs-SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_9.n_66.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_0.n_7917.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_0.n_7917.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_10.n_63.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_10.n_63.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_11.n_44.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_11.n_44.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_12.n_30.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_12.n_30.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_13.n_23.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_13.n_23.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_1.n_7374.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_1.n_7374.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_2.n_4419.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_2.n_4419.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_3.n_2913.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_3.n_2913.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_4.n_2529.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_4.n_2529.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_5.n_2001.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_5.n_2001.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_6.n_1460.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_6.n_1460.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_7.n_825.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_7.n_825.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_8.n_388.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_8.n_388.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_9.n_70.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_9.n_70.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_0.n_409.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_0.n_409.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_1.n_197.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_1.n_197.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_2.n_121.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_2.n_121.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_3.n_48.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_3.n_48.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_4.n_47.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_4.n_47.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_5.n_42.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_5.n_42.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_6.n_39.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_6.n_39.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_7.n_37.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_7.n_37.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_8.n_34.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_8.n_34.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_9.n_27.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_9.n_27.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_0.n_178.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_0.n_178.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_1.n_139.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_1.n_139.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_2.n_109.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_2.n_109.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_3.n_88.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_3.n_88.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_4.n_75.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_4.n_75.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_5.n_65.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_5.n_65.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_6.n_62.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_6.n_62.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_7.n_39.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_7.n_39.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_8.n_30.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_8.n_30.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_9.n_29.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_9.n_29.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_0.n_2026.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_0.n_2026.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_10.n_204.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_10.n_204.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_11.n_148.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_11.n_148.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_12.n_94.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_12.n_94.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_13.n_70.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_13.n_70.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_1.n_1471.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_1.n_1471.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_2.n_1412.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_2.n_1412.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_3.n_1088.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_3.n_1088.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_4.n_632.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_4.n_632.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_5.n_357.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_5.n_357.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_6.n_346.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_6.n_346.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_7.n_328.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_7.n_328.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_8.n_239.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_8.n_239.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_9.n_207.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_9.n_207.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_0.n_7917.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_0.n_7917.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_10.n_63.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_10.n_63.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_11.n_44.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_11.n_44.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_12.n_30.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_12.n_30.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_13.n_23.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_13.n_23.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_1.n_7374.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_1.n_7374.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_2.n_4419.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_2.n_4419.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_3.n_2913.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_3.n_2913.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_4.n_2529.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_4.n_2529.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_5.n_2001.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_5.n_2001.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_6.n_1460.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_6.n_1460.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_7.n_825.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_7.n_825.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_8.n_388.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_8.n_388.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_9.n_70.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_9.n_70.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_0.n_409.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_0.n_409.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_1.n_197.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_1.n_197.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_2.n_121.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_2.n_121.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_4.n_47.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_4.n_47.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_5.n_42.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_5.n_42.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_6.n_39.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_6.n_39.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_7.n_37.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_7.n_37.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_8.n_34.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_8.n_34.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_9.n_27.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_9.n_27.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_0.n_178.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_0.n_178.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_1.n_139.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_1.n_139.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_2.n_109.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_2.n_109.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_3.n_88.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_3.n_88.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_4.n_75.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_4.n_75.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_5.n_65.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_5.n_65.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_6.n_62.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_6.n_62.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_7.n_39.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_7.n_39.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_8.n_30.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_8.n_30.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_9.n_29.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_9.n_29.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_0.n_2026.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_0.n_2026.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_10.n_204.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_10.n_204.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_11.n_148.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_11.n_148.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_12.n_94.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_12.n_94.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_13.n_70.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_13.n_70.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_1.n_1471.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_1.n_1471.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_2.n_1412.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_2.n_1412.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_3.n_1088.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_3.n_1088.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_4.n_632.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_4.n_632.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_5.n_357.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_5.n_357.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_6.n_346.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_6.n_346.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_7.n_328.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_7.n_328.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_8.n_239.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_8.n_239.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_9.n_207.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_9.n_207.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_0.n_7917.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_0.n_7917.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_10.n_63.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_10.n_63.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_11.n_44.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_11.n_44.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_12.n_30.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_12.n_30.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_13.n_23.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_13.n_23.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_1.n_7374.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_1.n_7374.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_2.n_4419.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_2.n_4419.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_3.n_2913.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_3.n_2913.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_4.n_2529.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_4.n_2529.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_5.n_2001.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_5.n_2001.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_6.n_1460.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_6.n_1460.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_7.n_825.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_7.n_825.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_8.n_388.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_8.n_388.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_9.n_70.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_9.n_70.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_0.n_409.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_0.n_409.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_1.n_197.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_1.n_197.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_2.n_121.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_2.n_121.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_3.n_48.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_3.n_48.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_4.n_47.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_4.n_47.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_5.n_42.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_5.n_42.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_6.n_39.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_6.n_39.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_7.n_37.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_7.n_37.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_8.n_34.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_8.n_34.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_9.n_27.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_9.n_27.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_0.n_178.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_0.n_178.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_1.n_139.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_1.n_139.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_2.n_109.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_2.n_109.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_3.n_88.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_3.n_88.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_4.n_75.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_4.n_75.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_5.n_65.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_5.n_65.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_6.n_62.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_6.n_62.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_7.n_39.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_7.n_39.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_8.n_30.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_8.n_30.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_9.n_29.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_9.n_29.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_0.n_2026.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_0.n_2026.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_10.n_204.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_10.n_204.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_11.n_148.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_11.n_148.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_12.n_94.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_12.n_94.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_13.n_70.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_13.n_70.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_1.n_1471.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_1.n_1471.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_2.n_1412.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_2.n_1412.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_3.n_1088.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_3.n_1088.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_4.n_632.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_4.n_632.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_5.n_357.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_5.n_357.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_6.n_346.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_6.n_346.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_7.n_328.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_7.n_328.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_8.n_239.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_8.n_239.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_9.n_207.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_9.n_207.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_0.n_7917.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_0.n_7917.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_10.n_63.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_10.n_63.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_11.n_44.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_11.n_44.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_12.n_30.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_12.n_30.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_13.n_23.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_13.n_23.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_1.n_7374.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_1.n_7374.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_2.n_4419.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_2.n_4419.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_3.n_2913.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_3.n_2913.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_4.n_2529.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_4.n_2529.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_5.n_2001.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_5.n_2001.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_6.n_1460.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_6.n_1460.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_7.n_825.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_7.n_825.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_8.n_388.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_8.n_388.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_9.n_70.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_9.n_70.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_0.n_409.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_0.n_409.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_1.n_197.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_1.n_197.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_2.n_121.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_2.n_121.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_3.n_48.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_3.n_48.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_4.n_47.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_4.n_47.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_5.n_42.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_5.n_42.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_6.n_39.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_6.n_39.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_7.n_37.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_7.n_37.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_8.n_34.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_8.n_34.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_9.n_27.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_9.n_27.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_0.n_178.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_0.n_178.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_1.n_139.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_1.n_139.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_2.n_109.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_2.n_109.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_3.n_88.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_3.n_88.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_4.n_75.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_4.n_75.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_5.n_65.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_5.n_65.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_6.n_62.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_6.n_62.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_7.n_39.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_7.n_39.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_9.n_29.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_9.n_29.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_0.n_2026.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_0.n_2026.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_10.n_204.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_10.n_204.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_11.n_148.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_11.n_148.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_12.n_94.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_12.n_94.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_13.n_70.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_13.n_70.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_1.n_1471.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_1.n_1471.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_2.n_1412.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_2.n_1412.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_3.n_1088.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_3.n_1088.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_4.n_632.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_4.n_632.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_5.n_357.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_5.n_357.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_6.n_346.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_6.n_346.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_7.n_328.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_7.n_328.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_8.n_239.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_8.n_239.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_9.n_207.CWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_9.n_207.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_0.n_1000.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_0.n_1000.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_10.n_168.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_10.n_168.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_11.n_87.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_11.n_87.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_12.n_72.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_12.n_72.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_13.n_66.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_13.n_66.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_14.n_60.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_14.n_60.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_15.n_49.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_15.n_49.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_16.n_45.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_16.n_45.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_17.n_35.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_17.n_35.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_18.n_21.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_18.n_21.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_19.n_21.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_19.n_21.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_1.n_598.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_1.n_598.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_2.n_383.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_2.n_383.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_3.n_364.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_3.n_364.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_4.n_332.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_4.n_332.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_5.n_291.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_5.n_291.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_6.n_241.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_6.n_241.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_9.n_172.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_9.n_172.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_12.n_72.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_12.n_72.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_13.n_66.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_13.n_66.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_14.n_60.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_14.n_60.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_15.n_49.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_15.n_49.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_16.n_45.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_16.n_45.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_17.n_35.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_17.n_35.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_18.n_21.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_18.n_21.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_19.n_21.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_19.n_21.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_1.n_598.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_1.n_598.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_2.n_383.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_2.n_383.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_3.n_364.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_3.n_364.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_4.n_332.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_4.n_332.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_5.n_291.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_5.n_291.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_6.n_241.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_6.n_241.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_7.n_230.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_7.n_230.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_8.n_179.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_8.n_179.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_9.n_172.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_9.n_172.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_0.n_1000.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_0.n_1000.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_10.n_168.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_10.n_168.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_11.n_87.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_11.n_87.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_12.n_72.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_12.n_72.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_13.n_66.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_13.n_66.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_14.n_60.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_14.n_60.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_15.n_49.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_15.n_49.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_16.n_45.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_16.n_45.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_17.n_35.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_17.n_35.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_18.n_21.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_18.n_21.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_19.n_21.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_19.n_21.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_1.n_598.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_1.n_598.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_2.n_383.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_2.n_383.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_3.n_364.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_3.n_364.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_5.n_291.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_5.n_291.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_11.n_87.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_11.n_87.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_12.n_72.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_12.n_72.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_13.n_66.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_13.n_66.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_14.n_60.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_14.n_60.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_15.n_49.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_15.n_49.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_16.n_45.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_16.n_45.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_17.n_35.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_17.n_35.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_18.n_21.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_18.n_21.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_19.n_21.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_19.n_21.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_1.n_598.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_1.n_598.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_2.n_383.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_2.n_383.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_3.n_364.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_3.n_364.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_4.n_332.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_4.n_332.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_5.n_291.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_5.n_291.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_6.n_241.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_6.n_241.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_7.n_230.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_7.n_230.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_8.n_179.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_8.n_179.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_9.n_172.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_9.n_172.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_0.n_1000.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_0.n_1000.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_10.n_168.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_10.n_168.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_11.n_87.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_11.n_87.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_12.n_72.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_12.n_72.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_13.n_66.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_13.n_66.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_14.n_60.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_14.n_60.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_15.n_49.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_15.n_49.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_16.n_45.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_16.n_45.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_17.n_35.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_17.n_35.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_18.n_21.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_18.n_21.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_19.n_21.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_19.n_21.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_1.n_598.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_1.n_598.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_2.n_383.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_2.n_383.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_3.n_364.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_3.n_364.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_4.n_332.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_4.n_332.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_5.n_291.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_5.n_291.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_6.n_241.CWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_6.n_241.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-22Rv1-ENCSR246MLJ.bestfold.profile.pattern_1.n_23.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-22Rv1-ENCSR246MLJ.bestfold.profile.pattern_1.n_23.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-22Rv1-ENCSR246MLJ.bestfold.profile.pattern_2.n_22.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-22Rv1-ENCSR246MLJ.bestfold.profile.pattern_2.n_22.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-22Rv1-ENCSR246MLJ.bestfold.profile.pattern_3.n_21.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-22Rv1-ENCSR246MLJ.bestfold.profile.pattern_3.n_21.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-22Rv1-ENCSR246MLJ.bestfold.profile.pattern_4.n_20.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-22Rv1-ENCSR246MLJ.bestfold.profile.pattern_4.n_20.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_0.n_9230.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_0.n_9230.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_1.n_278.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_1.n_278.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_2.n_261.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_2.n_261.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_3.n_135.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_3.n_135.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_4.n_123.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_4.n_123.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_5.n_84.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_5.n_84.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_6.n_66.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_6.n_66.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_7.n_29.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_7.n_29.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_8.n_26.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_8.n_26.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_0.n_12729.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_0.n_12729.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_1.n_177.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_1.n_177.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_2.n_94.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_2.n_94.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_3.n_50.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_3.n_50.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_4.n_34.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_4.n_34.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_5.n_25.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_5.n_25.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_0.n_6751.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_0.n_6751.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_10.n_149.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_10.n_149.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_11.n_99.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_11.n_99.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_12.n_74.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_12.n_74.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_13.n_67.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_13.n_67.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_14.n_61.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_14.n_61.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_15.n_59.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_15.n_59.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_16.n_55.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_16.n_55.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_17.n_51.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_17.n_51.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_18.n_47.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_18.n_47.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_19.n_45.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_19.n_45.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_1.n_2378.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_1.n_2378.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_20.n_45.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_20.n_45.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_21.n_30.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_21.n_30.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_22.n_25.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_22.n_25.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_23.n_25.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_23.n_25.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_2.n_353.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_2.n_353.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_3.n_291.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_3.n_291.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_4.n_245.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_4.n_245.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_5.n_233.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_5.n_233.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_6.n_218.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_6.n_218.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_7.n_191.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_7.n_191.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_8.n_182.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_8.n_182.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_9.n_181.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_9.n_181.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_0.n_16997.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_0.n_16997.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_10.n_288.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_10.n_288.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_11.n_249.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_11.n_249.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_12.n_228.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_12.n_228.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_13.n_114.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_13.n_114.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_14.n_94.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_14.n_94.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_15.n_40.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_15.n_40.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_16.n_38.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_16.n_38.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_1.n_2712.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_1.n_2712.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_2.n_2270.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_2.n_2270.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_3.n_693.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_3.n_693.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_4.n_640.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_4.n_640.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_5.n_611.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_5.n_611.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_6.n_415.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_6.n_415.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_7.n_396.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_7.n_396.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_8.n_366.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_8.n_366.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_9.n_342.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_9.n_342.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_0.n_15446.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_0.n_15446.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_10.n_198.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_10.n_198.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_11.n_163.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_11.n_163.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_12.n_162.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_12.n_162.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_13.n_130.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_13.n_130.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_14.n_92.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_14.n_92.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_15.n_32.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_15.n_32.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_16.n_30.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_16.n_30.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_17.n_20.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_17.n_20.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_1.n_1113.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_1.n_1113.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_2.n_501.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_2.n_501.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_3.n_360.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_3.n_360.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_4.n_297.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_4.n_297.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_5.n_294.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_5.n_294.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_6.n_292.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_6.n_292.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_7.n_275.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_7.n_275.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_8.n_235.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_8.n_235.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_9.n_227.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_9.n_227.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_0.n_12661.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_0.n_12661.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_10.n_50.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_10.n_50.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_11.n_50.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_11.n_50.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_12.n_40.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_12.n_40.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_13.n_39.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_13.n_39.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_14.n_32.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_14.n_32.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_15.n_29.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_15.n_29.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_16.n_20.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_16.n_20.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_1.n_404.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_1.n_404.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_2.n_336.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_2.n_336.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_3.n_221.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_3.n_221.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_4.n_220.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_4.n_220.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_5.n_197.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_5.n_197.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_6.n_187.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_6.n_187.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_7.n_101.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_7.n_101.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_8.n_100.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_8.n_100.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_9.n_54.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_9.n_54.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_0.n_7900.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_0.n_7900.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_10.n_100.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_10.n_100.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_11.n_97.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_11.n_97.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_12.n_96.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_12.n_96.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_13.n_88.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_13.n_88.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_14.n_88.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_14.n_88.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_15.n_86.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_15.n_86.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_16.n_73.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_16.n_73.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_17.n_53.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_17.n_53.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_18.n_52.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_18.n_52.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_1.n_1762.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_1.n_1762.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_2.n_314.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_2.n_314.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_3.n_279.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_3.n_279.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_4.n_256.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_4.n_256.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_5.n_248.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_5.n_248.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_6.n_206.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_6.n_206.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_7.n_183.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_7.n_183.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_8.n_137.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_8.n_137.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_9.n_127.CWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_9.n_127.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL3-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_0.n_2058.CWM.meme motif-alignments-all-vs-all/OVOL3/OVOL3-202-vs-OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_0.n_2058.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL3-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_2.n_749.CWM.meme motif-alignments-all-vs-all/OVOL3/OVOL3-202-vs-OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_2.n_749.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL3-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_3.n_535.CWM.meme motif-alignments-all-vs-all/OVOL3/OVOL3-202-vs-OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_3.n_535.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL3-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_4.n_344.CWM.meme motif-alignments-all-vs-all/OVOL3/OVOL3-202-vs-OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_4.n_344.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL3-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_5.n_202.CWM.meme motif-alignments-all-vs-all/OVOL3/OVOL3-202-vs-OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_5.n_202.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL3-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_6.n_137.CWM.meme motif-alignments-all-vs-all/OVOL3/OVOL3-202-vs-OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_6.n_137.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL3-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_7.n_63.CWM.meme motif-alignments-all-vs-all/OVOL3/OVOL3-202-vs-OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_7.n_63.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_0.n_7222.CWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_0.n_7222.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_10.n_303.CWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_10.n_303.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_11.n_226.CWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_11.n_226.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_12.n_180.CWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_12.n_180.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_13.n_80.CWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_13.n_80.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_14.n_49.CWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_14.n_49.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_15.n_46.CWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_15.n_46.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_16.n_39.CWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_16.n_39.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_1.n_3414.CWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_1.n_3414.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_6.n_1128.CWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_6.n_1128.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_7.n_612.CWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_7.n_612.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_0.n_3527.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_0.n_3527.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_10.n_189.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_10.n_189.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_11.n_187.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_11.n_187.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_12.n_183.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_12.n_183.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_13.n_174.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_13.n_174.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_14.n_112.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_14.n_112.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_15.n_72.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_15.n_72.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_16.n_33.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_16.n_33.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_17.n_33.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_17.n_33.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_18.n_29.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_18.n_29.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_1.n_3392.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_1.n_3392.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_2.n_2470.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_2.n_2470.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_3.n_1155.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_3.n_1155.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_4.n_838.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_4.n_838.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_5.n_752.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_5.n_752.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_6.n_658.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_6.n_658.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_7.n_564.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_7.n_564.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_8.n_295.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_8.n_295.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_9.n_231.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_9.n_231.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_0.n_1217.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_0.n_1217.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_10.n_83.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_10.n_83.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_11.n_36.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_11.n_36.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_12.n_32.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_12.n_32.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_1.n_1000.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_1.n_1000.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_2.n_434.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_2.n_434.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_3.n_428.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_3.n_428.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_4.n_371.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_4.n_371.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_5.n_331.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_5.n_331.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_6.n_150.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_6.n_150.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_7.n_121.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_7.n_121.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_8.n_109.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_8.n_109.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_9.n_91.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_9.n_91.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_0.n_3527.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_0.n_3527.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_10.n_189.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_10.n_189.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_11.n_187.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_11.n_187.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_12.n_183.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_12.n_183.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_13.n_174.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_13.n_174.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_14.n_112.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_14.n_112.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_15.n_72.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_15.n_72.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_16.n_33.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_16.n_33.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_17.n_33.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_17.n_33.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_18.n_29.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_18.n_29.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_1.n_3392.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_1.n_3392.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_2.n_2470.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_2.n_2470.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_3.n_1155.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_3.n_1155.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_4.n_838.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_4.n_838.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_5.n_752.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_5.n_752.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_6.n_658.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_6.n_658.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_7.n_564.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_7.n_564.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_8.n_295.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_8.n_295.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_9.n_231.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_9.n_231.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_0.n_1217.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_0.n_1217.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_10.n_83.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_10.n_83.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_11.n_36.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_11.n_36.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_12.n_32.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_12.n_32.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_1.n_1000.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_1.n_1000.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_2.n_434.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_2.n_434.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_3.n_428.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_3.n_428.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_4.n_371.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_4.n_371.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_5.n_331.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_5.n_331.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_6.n_150.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_6.n_150.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_7.n_121.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_7.n_121.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_8.n_109.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_8.n_109.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_9.n_91.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_9.n_91.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_0.n_3527.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_0.n_3527.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_10.n_189.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_10.n_189.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_11.n_187.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_11.n_187.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_12.n_183.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_12.n_183.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_13.n_174.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_13.n_174.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_14.n_112.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_14.n_112.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_15.n_72.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_15.n_72.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_16.n_33.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_16.n_33.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_17.n_33.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_17.n_33.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_18.n_29.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_18.n_29.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_1.n_3392.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_1.n_3392.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_2.n_2470.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_2.n_2470.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_3.n_1155.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_3.n_1155.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_4.n_838.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_4.n_838.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_5.n_752.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_5.n_752.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_6.n_658.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_6.n_658.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_7.n_564.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_7.n_564.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_8.n_295.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_8.n_295.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_9.n_231.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_9.n_231.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_0.n_1217.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_0.n_1217.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_10.n_83.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_10.n_83.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_11.n_36.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_11.n_36.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_12.n_32.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_12.n_32.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_1.n_1000.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_1.n_1000.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_2.n_434.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_2.n_434.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_3.n_428.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_3.n_428.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_4.n_371.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_4.n_371.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_5.n_331.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_5.n_331.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_6.n_150.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_6.n_150.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_7.n_121.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_7.n_121.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_8.n_109.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_8.n_109.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_9.n_91.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_9.n_91.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_0.n_3527.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_0.n_3527.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_10.n_189.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_10.n_189.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_11.n_187.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_11.n_187.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_12.n_183.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_12.n_183.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_13.n_174.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_13.n_174.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_14.n_112.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_14.n_112.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_15.n_72.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_15.n_72.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_16.n_33.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_16.n_33.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_17.n_33.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_17.n_33.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_18.n_29.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_18.n_29.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_1.n_3392.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_1.n_3392.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_2.n_2470.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_2.n_2470.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_3.n_1155.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_3.n_1155.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_4.n_838.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_4.n_838.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_5.n_752.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_5.n_752.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_6.n_658.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_6.n_658.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_7.n_564.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_7.n_564.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_8.n_295.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_8.n_295.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_9.n_231.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_9.n_231.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_0.n_1217.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_0.n_1217.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_10.n_83.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_10.n_83.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_11.n_36.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_11.n_36.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_12.n_32.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_12.n_32.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_1.n_1000.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_1.n_1000.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_2.n_434.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_2.n_434.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_3.n_428.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_3.n_428.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_4.n_371.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_4.n_371.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_5.n_331.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_5.n_331.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_6.n_150.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_6.n_150.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_7.n_121.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_7.n_121.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_8.n_109.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_8.n_109.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_9.n_91.CWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_9.n_91.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_12.n_278.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_12.n_278.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_14.n_136.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_14.n_136.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_1.n_335.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_1.n_335.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_12.n_278.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_12.n_278.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_14.n_136.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_14.n_136.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_1.n_335.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_1.n_335.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_1.n_335.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_1.n_335.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_12.n_278.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_12.n_278.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_14.n_136.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_14.n_136.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_12.n_278.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_12.n_278.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_1.n_335.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_1.n_335.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.CWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_0.n_8199.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_0.n_8199.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_10.n_324.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_10.n_324.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_11.n_286.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_11.n_286.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_12.n_223.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_12.n_223.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_13.n_218.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_13.n_218.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_14.n_212.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_14.n_212.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_15.n_193.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_15.n_193.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_16.n_117.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_16.n_117.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_17.n_68.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_17.n_68.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_18.n_51.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_18.n_51.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_19.n_50.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_19.n_50.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_1.n_5691.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_1.n_5691.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_20.n_44.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_20.n_44.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_21.n_35.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_21.n_35.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_22.n_32.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_22.n_32.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_23.n_26.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_23.n_26.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_24.n_21.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_24.n_21.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_2.n_5459.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_2.n_5459.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_3.n_4524.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_3.n_4524.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_4.n_4169.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_4.n_4169.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_5.n_3056.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_5.n_3056.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_6.n_762.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_6.n_762.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_7.n_644.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_7.n_644.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_8.n_475.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_8.n_475.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_9.n_457.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_9.n_457.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_0.n_7444.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_0.n_7444.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_10.n_494.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_10.n_494.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_11.n_480.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_11.n_480.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_12.n_323.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_12.n_323.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_13.n_254.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_13.n_254.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_14.n_158.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_14.n_158.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_15.n_116.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_15.n_116.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_16.n_96.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_16.n_96.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_17.n_71.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_17.n_71.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_18.n_70.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_18.n_70.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_19.n_62.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_19.n_62.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_1.n_5084.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_1.n_5084.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_20.n_57.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_20.n_57.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_21.n_48.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_21.n_48.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_22.n_24.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_22.n_24.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_23.n_23.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_23.n_23.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_2.n_5078.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_2.n_5078.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_3.n_4167.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_3.n_4167.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_4.n_4057.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_4.n_4057.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_5.n_2801.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_5.n_2801.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_6.n_1068.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_6.n_1068.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_7.n_753.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_7.n_753.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_8.n_689.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_8.n_689.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_9.n_652.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_9.n_652.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_0.n_8199.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_0.n_8199.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_10.n_324.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_10.n_324.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_11.n_286.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_11.n_286.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_12.n_223.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_12.n_223.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_13.n_218.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_13.n_218.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_14.n_212.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_14.n_212.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_15.n_193.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_15.n_193.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_16.n_117.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_16.n_117.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_17.n_68.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_17.n_68.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_18.n_51.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_18.n_51.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_19.n_50.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_19.n_50.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_1.n_5691.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_1.n_5691.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_20.n_44.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_20.n_44.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_21.n_35.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_21.n_35.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_22.n_32.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_22.n_32.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_23.n_26.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_23.n_26.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_24.n_21.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_24.n_21.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_2.n_5459.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_2.n_5459.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_3.n_4524.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_3.n_4524.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_4.n_4169.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_4.n_4169.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_5.n_3056.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_5.n_3056.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_6.n_762.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_6.n_762.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_7.n_644.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_7.n_644.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_8.n_475.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_8.n_475.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_9.n_457.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_9.n_457.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_0.n_7444.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_0.n_7444.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_10.n_494.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_10.n_494.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_11.n_480.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_11.n_480.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_12.n_323.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_12.n_323.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_13.n_254.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_13.n_254.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_14.n_158.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_14.n_158.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_15.n_116.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_15.n_116.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_16.n_96.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_16.n_96.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_17.n_71.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_17.n_71.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_18.n_70.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_18.n_70.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_19.n_62.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_19.n_62.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_1.n_5084.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_1.n_5084.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_20.n_57.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_20.n_57.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_21.n_48.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_21.n_48.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_22.n_24.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_22.n_24.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_23.n_23.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_23.n_23.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_2.n_5078.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_2.n_5078.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_3.n_4167.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_3.n_4167.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_4.n_4057.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_4.n_4057.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_5.n_2801.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_5.n_2801.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_6.n_1068.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_6.n_1068.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_7.n_753.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_7.n_753.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_8.n_689.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_8.n_689.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_9.n_652.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_9.n_652.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_0.n_8199.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_0.n_8199.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_10.n_324.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_10.n_324.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_11.n_286.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_11.n_286.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_12.n_223.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_12.n_223.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_13.n_218.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_13.n_218.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_14.n_212.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_14.n_212.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_15.n_193.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_15.n_193.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_16.n_117.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_16.n_117.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_17.n_68.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_17.n_68.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_18.n_51.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_18.n_51.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_19.n_50.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_19.n_50.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_1.n_5691.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_1.n_5691.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_20.n_44.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_20.n_44.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_21.n_35.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_21.n_35.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_22.n_32.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_22.n_32.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_23.n_26.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_23.n_26.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_24.n_21.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_24.n_21.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_2.n_5459.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_2.n_5459.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_3.n_4524.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_3.n_4524.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_4.n_4169.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_4.n_4169.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_5.n_3056.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_5.n_3056.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_6.n_762.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_6.n_762.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_7.n_644.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_7.n_644.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_8.n_475.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_8.n_475.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_9.n_457.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_9.n_457.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_0.n_7444.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_0.n_7444.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_10.n_494.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_10.n_494.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_11.n_480.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_11.n_480.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_12.n_323.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_12.n_323.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_13.n_254.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_13.n_254.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_14.n_158.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_14.n_158.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_15.n_116.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_15.n_116.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_16.n_96.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_16.n_96.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_17.n_71.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_17.n_71.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_18.n_70.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_18.n_70.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_19.n_62.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_19.n_62.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_1.n_5084.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_1.n_5084.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_20.n_57.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_20.n_57.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_21.n_48.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_21.n_48.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_22.n_24.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_22.n_24.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_23.n_23.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_23.n_23.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_2.n_5078.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_2.n_5078.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_3.n_4167.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_3.n_4167.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_4.n_4057.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_4.n_4057.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_5.n_2801.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_5.n_2801.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_6.n_1068.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_6.n_1068.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_7.n_753.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_7.n_753.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_8.n_689.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_8.n_689.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_9.n_652.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_9.n_652.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_0.n_8199.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_0.n_8199.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_10.n_324.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_10.n_324.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_11.n_286.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_11.n_286.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_12.n_223.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_12.n_223.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_13.n_218.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_13.n_218.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_14.n_212.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_14.n_212.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_15.n_193.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_15.n_193.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_16.n_117.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_16.n_117.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_17.n_68.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_17.n_68.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_18.n_51.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_18.n_51.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_19.n_50.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_19.n_50.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_1.n_5691.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_1.n_5691.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_20.n_44.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_20.n_44.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_21.n_35.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_21.n_35.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_22.n_32.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_22.n_32.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_23.n_26.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_23.n_26.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_24.n_21.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_24.n_21.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_2.n_5459.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_2.n_5459.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_3.n_4524.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_3.n_4524.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_4.n_4169.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_4.n_4169.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_5.n_3056.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_5.n_3056.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_6.n_762.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_6.n_762.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_7.n_644.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_7.n_644.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_8.n_475.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_8.n_475.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_9.n_457.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_9.n_457.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_0.n_7444.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_0.n_7444.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_10.n_494.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_10.n_494.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_11.n_480.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_11.n_480.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_12.n_323.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_12.n_323.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_13.n_254.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_13.n_254.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_14.n_158.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_14.n_158.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_15.n_116.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_15.n_116.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_16.n_96.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_16.n_96.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_17.n_71.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_17.n_71.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_18.n_70.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_18.n_70.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_19.n_62.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_19.n_62.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_1.n_5084.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_1.n_5084.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_20.n_57.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_20.n_57.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_21.n_48.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_21.n_48.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_22.n_24.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_22.n_24.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_23.n_23.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_23.n_23.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_2.n_5078.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_2.n_5078.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_3.n_4167.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_3.n_4167.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_4.n_4057.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_4.n_4057.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_5.n_2801.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_5.n_2801.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_6.n_1068.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_6.n_1068.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_7.n_753.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_7.n_753.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_8.n_689.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_8.n_689.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_9.n_652.CWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_9.n_652.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_0.n_665.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_0.n_665.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_10.n_104.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_10.n_104.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_11.n_95.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_11.n_95.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_12.n_83.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_12.n_83.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_13.n_80.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_13.n_80.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_14.n_78.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_14.n_78.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_15.n_74.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_15.n_74.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_16.n_70.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_16.n_70.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_17.n_64.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_17.n_64.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_18.n_58.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_18.n_58.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_19.n_49.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_19.n_49.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_1.n_367.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_1.n_367.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_20.n_48.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_20.n_48.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_21.n_45.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_21.n_45.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_22.n_44.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_22.n_44.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_23.n_40.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_23.n_40.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_24.n_37.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_24.n_37.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_25.n_31.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_25.n_31.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_26.n_27.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_26.n_27.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_2.n_237.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_2.n_237.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_3.n_235.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_3.n_235.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_4.n_230.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_4.n_230.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_5.n_145.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_5.n_145.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_6.n_142.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_6.n_142.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_7.n_140.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_7.n_140.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_8.n_132.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_8.n_132.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_9.n_131.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_9.n_131.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_0.n_4621.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_0.n_4621.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_1.n_1496.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_1.n_1496.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_2.n_520.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_2.n_520.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_3.n_279.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_3.n_279.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_4.n_199.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_4.n_199.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_5.n_191.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_5.n_191.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_6.n_64.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_6.n_64.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_7.n_54.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_7.n_54.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_8.n_32.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_8.n_32.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_9.n_21.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_9.n_21.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_0.n_665.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_0.n_665.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_10.n_104.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_10.n_104.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_11.n_95.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_11.n_95.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_12.n_83.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_12.n_83.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_13.n_80.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_13.n_80.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_14.n_78.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_14.n_78.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_15.n_74.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_15.n_74.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_16.n_70.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_16.n_70.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_18.n_58.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_18.n_58.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_19.n_49.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_19.n_49.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_1.n_367.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_1.n_367.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_20.n_48.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_20.n_48.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_21.n_45.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_21.n_45.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_22.n_44.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_22.n_44.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_23.n_40.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_23.n_40.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_24.n_37.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_24.n_37.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_25.n_31.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_25.n_31.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_26.n_27.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_26.n_27.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_2.n_237.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_2.n_237.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_3.n_235.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_3.n_235.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_4.n_230.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_4.n_230.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_5.n_145.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_5.n_145.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_6.n_142.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_6.n_142.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_7.n_140.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_7.n_140.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_8.n_132.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_8.n_132.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_9.n_131.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_9.n_131.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_0.n_4621.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_0.n_4621.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_1.n_1496.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_1.n_1496.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_2.n_520.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_2.n_520.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_4.n_199.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_4.n_199.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_5.n_191.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_5.n_191.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_8.n_32.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_8.n_32.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_9.n_21.CWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_9.n_21.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_0.n_8980.CWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_0.n_8980.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_2.n_1002.CWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_2.n_1002.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_10.n_48.CWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_10.n_48.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_11.n_32.CWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_11.n_32.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_2.n_150.CWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_2.n_150.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_10.n_92.CWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-201-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_10.n_92.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_11.n_59.CWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-201-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_11.n_59.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_1.n_1064.CWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-201-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_1.n_1064.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_2.n_523.CWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-201-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_2.n_523.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_3.n_518.CWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-201-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_3.n_518.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_4.n_501.CWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-201-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_4.n_501.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_5.n_372.CWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-201-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_5.n_372.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_6.n_291.CWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-201-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_6.n_291.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_7.n_285.CWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-201-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_7.n_285.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_8.n_213.CWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-201-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_8.n_213.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_9.n_94.CWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-201-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_9.n_94.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_0.n_6045.CWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_0.n_6045.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_10.n_92.CWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_10.n_92.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_11.n_59.CWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_11.n_59.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_1.n_1064.CWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_1.n_1064.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_2.n_523.CWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_2.n_523.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_3.n_518.CWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_3.n_518.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_4.n_501.CWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_4.n_501.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_5.n_372.CWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_5.n_372.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_6.n_291.CWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_6.n_291.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_7.n_285.CWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_7.n_285.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_8.n_213.CWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_8.n_213.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_9.n_94.CWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_9.n_94.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_0.n_6045.CWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_0.n_6045.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_10.n_92.CWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_10.n_92.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_11.n_59.CWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_11.n_59.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_1.n_1064.CWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_1.n_1064.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_2.n_523.CWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_2.n_523.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_3.n_518.CWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_3.n_518.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_4.n_501.CWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_4.n_501.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_5.n_372.CWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_5.n_372.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_6.n_291.CWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_6.n_291.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_7.n_285.CWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_7.n_285.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_8.n_213.CWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_8.n_213.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_10.n_248.CWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_10.n_248.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_11.n_246.CWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_11.n_246.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_12.n_225.CWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_12.n_225.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_13.n_215.CWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_13.n_215.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_14.n_195.CWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_14.n_195.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_15.n_182.CWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_15.n_182.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_16.n_168.CWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_16.n_168.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_17.n_167.CWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_17.n_167.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_18.n_161.CWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_18.n_161.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_19.n_158.CWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_19.n_158.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_1.n_2886.CWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_1.n_2886.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_20.n_143.CWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_20.n_143.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_21.n_127.CWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_21.n_127.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_22.n_119.CWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_22.n_119.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_23.n_109.CWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_23.n_109.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_7.n_96.CWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_7.n_96.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_8.n_46.CWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_8.n_46.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_9.n_33.CWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_9.n_33.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_0.n_573.CWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_0.n_573.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_10.n_115.CWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_10.n_115.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_11.n_113.CWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_11.n_113.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_12.n_112.CWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_12.n_112.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_13.n_108.CWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_13.n_108.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_14.n_79.CWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_14.n_79.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_15.n_77.CWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_15.n_77.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_16.n_62.CWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_16.n_62.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_17.n_60.CWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_17.n_60.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_18.n_42.CWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_18.n_42.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_19.n_37.CWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_19.n_37.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_1.n_357.CWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_1.n_357.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_20.n_32.CWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_20.n_32.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_21.n_21.CWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_21.n_21.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_2.n_325.CWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_2.n_325.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_3.n_291.CWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_3.n_291.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_4.n_255.CWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_4.n_255.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_5.n_202.CWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_5.n_202.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_6.n_166.CWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_6.n_166.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_7.n_150.CWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_7.n_150.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_8.n_130.CWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_8.n_130.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_9.n_117.CWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_9.n_117.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.CWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-201-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.CWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-201-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.CWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-201-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.CWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-203-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.CWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-203-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.CWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-203-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.CWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-206-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.CWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-206-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.CWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-206-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-220/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.CWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-220-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-220/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.CWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-220-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-220/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.CWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-220-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-221/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.CWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-221-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_7.n_107.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_7.n_107.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_8.n_66.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_8.n_66.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_9.n_38.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_9.n_38.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_0.n_1856.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_0.n_1856.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_10.n_267.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_10.n_267.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_11.n_257.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_11.n_257.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_12.n_72.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_12.n_72.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_13.n_32.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_13.n_32.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_14.n_31.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_14.n_31.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_1.n_1359.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_1.n_1359.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_2.n_1270.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_2.n_1270.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_3.n_1015.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_3.n_1015.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_4.n_847.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_4.n_847.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_5.n_651.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_5.n_651.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_6.n_562.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_6.n_562.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_7.n_537.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_7.n_537.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_8.n_489.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_8.n_489.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_9.n_373.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_9.n_373.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_0.n_1660.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_0.n_1660.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_10.n_35.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_10.n_35.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_11.n_32.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_11.n_32.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_1.n_584.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_1.n_584.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_2.n_245.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_2.n_245.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_3.n_188.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_3.n_188.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_4.n_162.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_4.n_162.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_5.n_126.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_5.n_126.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_6.n_120.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_6.n_120.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_7.n_107.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_7.n_107.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_8.n_66.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_8.n_66.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_9.n_38.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_9.n_38.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_0.n_1856.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_0.n_1856.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_10.n_267.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_10.n_267.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_11.n_257.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_11.n_257.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_12.n_72.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_12.n_72.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_13.n_32.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_13.n_32.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_14.n_31.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_14.n_31.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_1.n_1359.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_1.n_1359.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_2.n_1270.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_2.n_1270.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_3.n_1015.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_3.n_1015.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_4.n_847.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_4.n_847.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_5.n_651.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_5.n_651.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_6.n_562.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_6.n_562.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_7.n_537.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_7.n_537.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_8.n_489.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_8.n_489.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_9.n_373.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_9.n_373.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_0.n_1660.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_0.n_1660.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_10.n_35.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_10.n_35.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_11.n_32.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_11.n_32.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_1.n_584.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_1.n_584.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_2.n_245.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_2.n_245.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_3.n_188.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_3.n_188.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_4.n_162.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_4.n_162.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_5.n_126.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_5.n_126.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_6.n_120.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_6.n_120.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_7.n_107.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_7.n_107.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_8.n_66.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_8.n_66.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_9.n_38.CWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_9.n_38.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_0.n_6539.CWM.meme motif-alignments-all-vs-all/KLF4/KLF4-201-vs-KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_0.n_6539.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_1.n_737.CWM.meme motif-alignments-all-vs-all/KLF4/KLF4-201-vs-KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_1.n_737.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_2.n_520.CWM.meme motif-alignments-all-vs-all/KLF4/KLF4-201-vs-KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_2.n_520.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_3.n_512.CWM.meme motif-alignments-all-vs-all/KLF4/KLF4-201-vs-KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_3.n_512.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_4.n_250.CWM.meme motif-alignments-all-vs-all/KLF4/KLF4-201-vs-KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_4.n_250.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_5.n_99.CWM.meme motif-alignments-all-vs-all/KLF4/KLF4-201-vs-KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_5.n_99.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_6.n_68.CWM.meme motif-alignments-all-vs-all/KLF4/KLF4-201-vs-KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_6.n_68.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_7.n_21.CWM.meme motif-alignments-all-vs-all/KLF4/KLF4-201-vs-KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_7.n_21.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_0.n_961.CWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_0.n_961.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_10.n_77.CWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_10.n_77.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_11.n_37.CWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_11.n_37.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_12.n_21.CWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_12.n_21.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_1.n_358.CWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_1.n_358.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_2.n_327.CWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_2.n_327.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_3.n_239.CWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_3.n_239.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_4.n_210.CWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_4.n_210.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_6.n_169.CWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_6.n_169.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_7.n_168.CWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_7.n_168.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_8.n_163.CWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_8.n_163.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_9.n_98.CWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_9.n_98.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_0.n_525.CWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_0.n_525.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_1.n_380.CWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_1.n_380.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_2.n_172.CWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_2.n_172.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_3.n_170.CWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_3.n_170.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_4.n_165.CWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_4.n_165.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_5.n_131.CWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_5.n_131.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_6.n_35.CWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_6.n_35.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_7.n_26.CWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_7.n_26.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_0.n_3740.CWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_0.n_3740.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_10.n_234.CWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_10.n_234.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_11.n_186.CWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_11.n_186.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_12.n_182.CWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_12.n_182.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_13.n_105.CWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_13.n_105.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_14.n_83.CWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_14.n_83.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_15.n_47.CWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_15.n_47.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_16.n_37.CWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_16.n_37.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_17.n_29.CWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_17.n_29.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_18.n_27.CWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_18.n_27.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_1.n_3350.CWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_1.n_3350.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_2.n_2850.CWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_2.n_2850.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_3.n_1994.CWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_3.n_1994.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_4.n_622.CWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_4.n_622.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_5.n_620.CWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_5.n_620.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_6.n_387.CWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_6.n_387.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_7.n_307.CWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_7.n_307.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_8.n_294.CWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_8.n_294.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_9.n_255.CWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_9.n_255.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_0.n_14035.CWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_0.n_14035.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_1.n_744.CWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_1.n_744.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_2.n_636.CWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_2.n_636.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_3.n_462.CWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_3.n_462.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_5.n_176.CWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_5.n_176.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_3.n_946.CWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_3.n_946.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_4.n_945.CWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_4.n_945.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_5.n_842.CWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_5.n_842.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_6.n_663.CWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_6.n_663.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_7.n_422.CWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_7.n_422.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_8.n_255.CWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_8.n_255.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_9.n_240.CWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_9.n_240.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_0.n_9855.CWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_0.n_9855.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_10.n_173.CWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_10.n_173.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_11.n_161.CWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_11.n_161.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_12.n_156.CWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_12.n_156.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_13.n_145.CWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_13.n_145.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_15.n_52.CWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_15.n_52.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_16.n_48.CWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_16.n_48.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_19.n_26.CWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_19.n_26.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_2.n_4177.CWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_2.n_4177.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_4.n_1954.CWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_4.n_1954.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_10.n_283.CWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_10.n_283.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_11.n_279.CWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_11.n_279.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_12.n_252.CWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_12.n_252.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_13.n_119.CWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_13.n_119.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_14.n_102.CWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_14.n_102.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_15.n_37.CWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_15.n_37.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_16.n_36.CWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_16.n_36.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_17.n_31.CWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_17.n_31.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_18.n_30.CWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_18.n_30.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_19.n_26.CWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_19.n_26.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_1.n_1102.CWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_1.n_1102.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_20.n_21.CWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_20.n_21.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_2.n_845.CWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_2.n_845.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_3.n_838.CWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_3.n_838.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_4.n_548.CWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_4.n_548.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_5.n_525.CWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_5.n_525.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_6.n_512.CWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_6.n_512.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_7.n_473.CWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_7.n_473.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_8.n_341.CWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_8.n_341.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_9.n_298.CWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_9.n_298.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_0.n_8887.CWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_0.n_8887.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_12.n_22.CWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_12.n_22.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_2.n_782.CWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_2.n_782.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_3.n_683.CWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_3.n_683.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_12.n_30.CWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_12.n_30.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_1.n_3841.CWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_1.n_3841.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_2.n_1526.CWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_2.n_1526.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_3.n_907.CWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_3.n_907.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_4.n_564.CWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_4.n_564.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_5.n_415.CWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_5.n_415.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_6.n_388.CWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_6.n_388.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_7.n_286.CWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_7.n_286.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_8.n_203.CWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_8.n_203.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_9.n_120.CWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_9.n_120.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_0.n_11128.CWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_0.n_11128.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_10.n_434.CWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_10.n_434.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_11.n_433.CWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_11.n_433.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_12.n_413.CWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_12.n_413.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_13.n_326.CWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_13.n_326.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_14.n_261.CWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_14.n_261.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_15.n_201.CWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_15.n_201.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_16.n_45.CWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_16.n_45.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_17.n_29.CWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_17.n_29.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_18.n_24.CWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_18.n_24.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_2.n_946.CWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_2.n_946.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_5.n_706.CWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_5.n_706.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_7.n_666.CWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_7.n_666.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_8.n_637.CWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_8.n_637.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_17.n_29.CWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_17.n_29.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_18.n_24.CWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_18.n_24.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_1.n_1450.CWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_1.n_1450.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_2.n_946.CWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_2.n_946.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_3.n_913.CWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_3.n_913.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_4.n_870.CWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_4.n_870.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_5.n_706.CWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_5.n_706.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_6.n_672.CWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_6.n_672.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_7.n_666.CWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_7.n_666.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_8.n_637.CWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_8.n_637.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_9.n_442.CWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_9.n_442.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_0.n_9417.CWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_0.n_9417.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_10.n_289.CWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_10.n_289.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_11.n_187.CWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_11.n_187.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_12.n_150.CWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_12.n_150.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_13.n_146.CWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_13.n_146.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_14.n_138.CWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_14.n_138.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_15.n_60.CWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_15.n_60.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_16.n_26.CWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_16.n_26.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_17.n_23.CWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_17.n_23.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_1.n_2222.CWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_1.n_2222.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_2.n_1768.CWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_2.n_1768.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_3.n_1325.CWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_3.n_1325.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_4.n_1184.CWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_4.n_1184.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_5.n_984.CWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_5.n_984.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_6.n_618.CWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_6.n_618.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_7.n_601.CWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_7.n_601.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_8.n_473.CWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_8.n_473.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_9.n_392.CWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_9.n_392.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_0.n_10172.CWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_0.n_10172.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_10.n_63.CWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_10.n_63.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_11.n_55.CWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_11.n_55.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_12.n_39.CWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_12.n_39.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_1.n_5365.CWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_1.n_5365.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_2.n_4138.CWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_2.n_4138.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_3.n_2645.CWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_3.n_2645.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_4.n_2412.CWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_4.n_2412.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_6.n_1717.CWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_6.n_1717.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_7.n_1432.CWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_7.n_1432.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_8.n_917.CWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_8.n_917.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_9.n_127.CWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_9.n_127.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_0.n_10172.CWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_0.n_10172.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_10.n_63.CWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_10.n_63.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_11.n_55.CWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_11.n_55.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_12.n_39.CWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_12.n_39.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_1.n_5365.CWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_1.n_5365.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_2.n_4138.CWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_2.n_4138.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_3.n_2645.CWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_3.n_2645.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_4.n_2412.CWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_4.n_2412.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_5.n_1898.CWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_5.n_1898.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_6.n_1717.CWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_6.n_1717.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_7.n_1432.CWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_7.n_1432.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_8.n_917.CWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_8.n_917.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_9.n_127.CWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_9.n_127.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_0.n_1536.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_0.n_1536.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_10.n_43.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_10.n_43.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_11.n_22.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_11.n_22.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_1.n_720.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_1.n_720.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_2.n_260.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_2.n_260.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_3.n_188.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_3.n_188.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_4.n_122.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_4.n_122.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_5.n_119.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_5.n_119.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_6.n_90.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_6.n_90.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_7.n_85.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_7.n_85.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_8.n_65.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_8.n_65.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_9.n_56.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_9.n_56.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_0.n_982.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_0.n_982.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_10.n_49.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_10.n_49.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_2.n_113.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_2.n_113.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_3.n_100.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_3.n_100.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_4.n_97.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_4.n_97.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_5.n_95.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_5.n_95.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_6.n_81.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_6.n_81.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_7.n_78.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_7.n_78.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_8.n_74.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_8.n_74.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_9.n_59.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_9.n_59.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_0.n_11533.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_0.n_11533.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_10.n_457.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_10.n_457.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_11.n_314.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_11.n_314.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_12.n_272.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_12.n_272.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_13.n_269.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_13.n_269.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_14.n_228.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_14.n_228.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_15.n_224.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_15.n_224.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_16.n_208.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_16.n_208.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_17.n_162.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_17.n_162.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_18.n_128.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_18.n_128.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_19.n_117.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_19.n_117.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_1.n_3137.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_1.n_3137.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_20.n_114.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_20.n_114.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_21.n_113.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_21.n_113.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_22.n_105.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_22.n_105.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_23.n_93.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_23.n_93.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_24.n_90.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_24.n_90.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_25.n_62.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_25.n_62.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_26.n_55.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_26.n_55.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_27.n_53.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_27.n_53.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_28.n_47.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_28.n_47.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_29.n_46.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_29.n_46.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_2.n_3053.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_2.n_3053.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_30.n_44.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_30.n_44.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_31.n_36.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_31.n_36.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_32.n_34.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_32.n_34.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_33.n_32.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_33.n_32.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_34.n_20.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_34.n_20.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_3.n_1844.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_3.n_1844.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_4.n_1740.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_4.n_1740.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_5.n_1306.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_5.n_1306.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_6.n_734.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_6.n_734.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_7.n_653.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_7.n_653.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_8.n_497.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_8.n_497.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_9.n_461.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_9.n_461.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_0.n_876.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_0.n_876.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_10.n_24.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_10.n_24.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_11.n_21.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_11.n_21.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_1.n_166.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_1.n_166.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_2.n_94.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_2.n_94.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_3.n_59.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_3.n_59.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_4.n_51.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_4.n_51.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_5.n_48.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_5.n_48.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_6.n_46.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_6.n_46.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_7.n_43.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_7.n_43.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_8.n_37.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_8.n_37.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_9.n_37.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_9.n_37.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_0.n_1536.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_0.n_1536.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_10.n_43.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_10.n_43.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_11.n_22.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_11.n_22.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_1.n_720.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_1.n_720.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_2.n_260.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_2.n_260.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_3.n_188.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_3.n_188.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_4.n_122.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_4.n_122.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_5.n_119.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_5.n_119.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_6.n_90.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_6.n_90.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_7.n_85.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_7.n_85.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_8.n_65.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_8.n_65.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_9.n_56.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_9.n_56.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_0.n_982.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_0.n_982.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_10.n_49.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_10.n_49.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_12.n_45.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_12.n_45.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_13.n_43.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_13.n_43.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_14.n_32.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_14.n_32.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_15.n_22.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_15.n_22.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_1.n_127.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_1.n_127.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_2.n_113.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_2.n_113.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_3.n_100.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_3.n_100.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_4.n_97.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_4.n_97.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_5.n_95.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_5.n_95.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_6.n_81.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_6.n_81.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_7.n_78.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_7.n_78.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_8.n_74.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_8.n_74.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_9.n_59.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_9.n_59.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_0.n_11533.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_0.n_11533.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_10.n_457.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_10.n_457.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_11.n_314.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_11.n_314.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_12.n_272.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_12.n_272.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_13.n_269.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_13.n_269.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_14.n_228.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_14.n_228.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_15.n_224.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_15.n_224.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_16.n_208.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_16.n_208.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_17.n_162.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_17.n_162.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_18.n_128.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_18.n_128.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_19.n_117.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_19.n_117.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_1.n_3137.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_1.n_3137.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_20.n_114.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_20.n_114.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_21.n_113.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_21.n_113.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_22.n_105.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_22.n_105.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_23.n_93.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_23.n_93.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_24.n_90.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_24.n_90.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_25.n_62.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_25.n_62.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_26.n_55.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_26.n_55.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_27.n_53.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_27.n_53.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_28.n_47.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_28.n_47.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_29.n_46.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_29.n_46.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_2.n_3053.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_2.n_3053.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_30.n_44.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_30.n_44.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_31.n_36.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_31.n_36.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_32.n_34.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_32.n_34.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_33.n_32.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_33.n_32.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_34.n_20.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_34.n_20.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_35.n_20.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_35.n_20.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_3.n_1844.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_3.n_1844.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_4.n_1740.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_4.n_1740.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_5.n_1306.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_5.n_1306.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_6.n_734.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_6.n_734.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_7.n_653.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_7.n_653.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_8.n_497.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_8.n_497.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_9.n_461.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_9.n_461.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_0.n_876.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_0.n_876.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_10.n_24.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_10.n_24.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_11.n_21.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_11.n_21.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_1.n_166.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_1.n_166.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_2.n_94.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_2.n_94.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_3.n_59.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_3.n_59.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_4.n_51.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_4.n_51.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_5.n_48.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_5.n_48.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_6.n_46.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_6.n_46.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_7.n_43.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_7.n_43.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_8.n_37.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_8.n_37.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_9.n_37.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_9.n_37.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_0.n_1536.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_0.n_1536.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_10.n_43.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_10.n_43.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_11.n_22.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_11.n_22.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_1.n_720.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_1.n_720.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_2.n_260.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_2.n_260.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_3.n_188.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_3.n_188.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_4.n_122.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_4.n_122.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_5.n_119.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_5.n_119.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_6.n_90.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_6.n_90.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_7.n_85.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_7.n_85.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_8.n_65.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_8.n_65.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_9.n_56.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_9.n_56.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_0.n_982.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_0.n_982.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_10.n_49.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_10.n_49.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_11.n_46.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_11.n_46.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_12.n_45.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_12.n_45.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_13.n_43.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_13.n_43.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_14.n_32.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_14.n_32.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_15.n_22.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_15.n_22.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_1.n_127.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_1.n_127.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_2.n_113.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_2.n_113.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_3.n_100.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_3.n_100.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_4.n_97.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_4.n_97.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_5.n_95.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_5.n_95.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_6.n_81.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_6.n_81.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_7.n_78.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_7.n_78.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_8.n_74.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_8.n_74.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_9.n_59.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_9.n_59.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_0.n_11533.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_0.n_11533.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_10.n_457.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_10.n_457.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_11.n_314.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_11.n_314.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_12.n_272.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_12.n_272.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_13.n_269.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_13.n_269.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_14.n_228.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_14.n_228.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_15.n_224.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_15.n_224.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_16.n_208.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_16.n_208.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_17.n_162.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_17.n_162.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_18.n_128.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_18.n_128.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_19.n_117.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_19.n_117.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_1.n_3137.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_1.n_3137.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_20.n_114.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_20.n_114.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_21.n_113.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_21.n_113.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_22.n_105.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_22.n_105.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_23.n_93.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_23.n_93.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_24.n_90.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_24.n_90.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_25.n_62.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_25.n_62.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_26.n_55.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_26.n_55.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_27.n_53.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_27.n_53.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_28.n_47.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_28.n_47.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_29.n_46.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_29.n_46.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_2.n_3053.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_2.n_3053.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_30.n_44.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_30.n_44.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_5.n_1306.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_5.n_1306.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_7.n_653.CWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_7.n_653.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_20.n_432.CWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_20.n_432.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_21.n_410.CWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_21.n_410.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_22.n_386.CWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_22.n_386.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_23.n_385.CWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_23.n_385.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_24.n_369.CWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_24.n_369.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_25.n_342.CWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_25.n_342.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_26.n_341.CWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_26.n_341.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_27.n_331.CWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_27.n_331.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_28.n_328.CWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_28.n_328.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_29.n_320.CWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_29.n_320.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_2.n_824.CWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_2.n_824.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_30.n_270.CWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_30.n_270.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_31.n_261.CWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_31.n_261.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_32.n_222.CWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_32.n_222.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_33.n_76.CWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_33.n_76.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_34.n_76.CWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_34.n_76.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_35.n_74.CWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_35.n_74.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_36.n_68.CWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_36.n_68.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_37.n_26.CWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_37.n_26.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_3.n_797.CWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_3.n_797.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_4.n_787.CWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_4.n_787.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_5.n_782.CWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_5.n_782.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_6.n_728.CWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_6.n_728.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_7.n_707.CWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_7.n_707.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_8.n_695.CWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_8.n_695.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_9.n_664.CWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_9.n_664.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_0.n_2782.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_0.n_2782.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_10.n_174.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_10.n_174.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_11.n_171.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_11.n_171.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_12.n_164.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_12.n_164.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_13.n_157.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_13.n_157.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_14.n_131.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_14.n_131.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_15.n_126.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_15.n_126.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_16.n_124.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_16.n_124.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_17.n_113.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_17.n_113.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_18.n_83.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_18.n_83.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_19.n_80.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_19.n_80.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_1.n_2492.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_1.n_2492.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_20.n_45.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_20.n_45.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_21.n_41.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_21.n_41.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_22.n_30.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_22.n_30.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_23.n_28.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_23.n_28.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_24.n_27.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_24.n_27.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_2.n_1716.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_2.n_1716.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_3.n_1235.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_3.n_1235.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_4.n_1139.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_4.n_1139.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_5.n_728.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_5.n_728.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_6.n_399.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_6.n_399.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_7.n_328.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_7.n_328.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_8.n_273.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_8.n_273.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_9.n_212.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_9.n_212.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_0.n_2510.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_0.n_2510.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_10.n_32.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_10.n_32.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_11.n_25.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_11.n_25.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_12.n_22.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_12.n_22.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_13.n_20.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_13.n_20.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_1.n_2293.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_1.n_2293.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_2.n_1090.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_2.n_1090.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_3.n_770.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_3.n_770.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_4.n_313.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_4.n_313.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_5.n_158.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_5.n_158.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_6.n_156.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_6.n_156.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_7.n_90.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_7.n_90.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_8.n_53.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_8.n_53.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_9.n_36.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_9.n_36.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_0.n_2816.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_0.n_2816.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_10.n_33.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_10.n_33.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_11.n_32.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_11.n_32.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_1.n_1772.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_1.n_1772.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_2.n_1422.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_2.n_1422.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_3.n_565.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_3.n_565.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_4.n_206.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_4.n_206.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_5.n_117.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_5.n_117.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_6.n_105.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_6.n_105.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_7.n_68.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_7.n_68.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_8.n_65.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_8.n_65.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_9.n_63.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_9.n_63.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_0.n_2450.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_0.n_2450.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_10.n_62.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_10.n_62.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_11.n_50.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_11.n_50.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_12.n_27.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_12.n_27.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_13.n_24.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_13.n_24.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_14.n_20.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_14.n_20.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_1.n_1269.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_1.n_1269.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_2.n_417.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_2.n_417.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_3.n_321.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_3.n_321.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_4.n_208.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_4.n_208.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_5.n_143.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_5.n_143.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_6.n_113.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_6.n_113.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_7.n_89.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_7.n_89.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_8.n_76.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_8.n_76.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_9.n_69.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_9.n_69.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_0.n_5427.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_0.n_5427.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_10.n_93.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_10.n_93.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_11.n_65.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_11.n_65.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_12.n_61.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_12.n_61.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_13.n_50.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_13.n_50.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_14.n_38.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_14.n_38.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_15.n_30.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_15.n_30.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_16.n_23.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_16.n_23.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_17.n_22.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_17.n_22.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_1.n_4828.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_1.n_4828.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_2.n_1837.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_2.n_1837.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_3.n_1575.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_3.n_1575.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_4.n_510.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_4.n_510.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_5.n_304.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_5.n_304.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_6.n_302.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_6.n_302.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_7.n_109.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_7.n_109.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_8.n_103.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_8.n_103.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_9.n_96.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_9.n_96.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_0.n_2228.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_0.n_2228.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_1.n_1059.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_1.n_1059.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_2.n_183.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_2.n_183.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_3.n_182.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_3.n_182.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_4.n_174.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_4.n_174.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_5.n_114.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_5.n_114.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_6.n_30.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_6.n_30.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_0.n_5234.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_0.n_5234.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_10.n_133.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_10.n_133.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_11.n_124.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_11.n_124.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_12.n_99.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_12.n_99.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_13.n_72.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_13.n_72.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_14.n_55.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_14.n_55.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_15.n_50.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_15.n_50.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_16.n_44.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_16.n_44.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_17.n_43.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_17.n_43.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_18.n_43.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_18.n_43.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_19.n_42.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_19.n_42.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_1.n_4531.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_1.n_4531.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_20.n_40.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_20.n_40.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_21.n_29.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_21.n_29.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_22.n_28.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_22.n_28.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_23.n_21.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_23.n_21.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_2.n_3835.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_2.n_3835.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_3.n_581.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_3.n_581.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_4.n_350.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_4.n_350.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_5.n_327.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_5.n_327.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_6.n_250.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_6.n_250.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_7.n_245.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_7.n_245.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_8.n_218.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_8.n_218.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_9.n_141.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_9.n_141.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_0.n_1578.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_0.n_1578.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_1.n_930.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_1.n_930.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_2.n_854.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_2.n_854.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_3.n_172.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_3.n_172.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_4.n_170.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_4.n_170.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_5.n_33.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_5.n_33.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_6.n_20.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_6.n_20.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_0.n_2822.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_0.n_2822.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_10.n_286.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_10.n_286.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_11.n_222.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_11.n_222.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_12.n_191.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_12.n_191.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_13.n_173.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_13.n_173.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_14.n_149.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_14.n_149.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_15.n_137.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_15.n_137.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_16.n_119.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_16.n_119.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_17.n_119.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_17.n_119.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_18.n_117.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_18.n_117.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_19.n_92.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_19.n_92.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_1.n_1740.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_1.n_1740.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_20.n_89.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_20.n_89.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_21.n_87.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_21.n_87.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_22.n_66.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_22.n_66.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_23.n_58.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_23.n_58.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_24.n_49.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_24.n_49.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_25.n_21.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_25.n_21.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_2.n_1573.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_2.n_1573.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_3.n_1258.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_3.n_1258.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_4.n_970.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_4.n_970.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_5.n_852.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_5.n_852.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_6.n_679.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_6.n_679.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_7.n_438.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_7.n_438.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_8.n_436.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_8.n_436.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_9.n_313.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_9.n_313.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_0.n_4554.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_0.n_4554.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_10.n_92.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_10.n_92.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_11.n_60.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_11.n_60.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_12.n_59.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_12.n_59.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_13.n_39.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_13.n_39.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_14.n_31.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_14.n_31.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_1.n_3576.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_1.n_3576.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_2.n_515.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_2.n_515.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_3.n_404.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_3.n_404.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_4.n_398.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_4.n_398.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_5.n_260.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_5.n_260.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_6.n_237.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_6.n_237.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_7.n_135.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_7.n_135.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_8.n_108.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_8.n_108.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_9.n_100.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_9.n_100.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000ATM.bestfold.profile.pattern_0.n_1675.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000ATM.bestfold.profile.pattern_0.n_1675.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000ATM.bestfold.profile.pattern_10.n_23.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000ATM.bestfold.profile.pattern_10.n_23.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000ATM.bestfold.profile.pattern_1.n_1673.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000ATM.bestfold.profile.pattern_1.n_1673.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000ATM.bestfold.profile.pattern_2.n_1423.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000ATM.bestfold.profile.pattern_2.n_1423.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000ATM.bestfold.profile.pattern_3.n_1311.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000ATM.bestfold.profile.pattern_3.n_1311.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000ATM.bestfold.profile.pattern_4.n_190.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000ATM.bestfold.profile.pattern_4.n_190.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000ATM.bestfold.profile.pattern_5.n_122.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000ATM.bestfold.profile.pattern_5.n_122.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000ATM.bestfold.profile.pattern_6.n_117.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000ATM.bestfold.profile.pattern_6.n_117.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000ATM.bestfold.profile.pattern_7.n_78.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000ATM.bestfold.profile.pattern_7.n_78.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000ATM.bestfold.profile.pattern_8.n_71.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000ATM.bestfold.profile.pattern_8.n_71.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000ATM.bestfold.profile.pattern_9.n_69.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000ATM.bestfold.profile.pattern_9.n_69.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_0.n_7380.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_0.n_7380.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_10.n_205.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_10.n_205.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_11.n_184.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_11.n_184.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_12.n_104.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_12.n_104.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_13.n_97.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_13.n_97.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_14.n_91.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_14.n_91.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_15.n_81.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_15.n_81.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_16.n_63.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_16.n_63.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_17.n_37.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_17.n_37.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_18.n_28.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_18.n_28.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_19.n_25.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_19.n_25.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_1.n_4770.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_1.n_4770.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_2.n_4398.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_2.n_4398.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_3.n_2181.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_3.n_2181.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_4.n_713.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_4.n_713.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_5.n_674.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_5.n_674.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_6.n_531.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_6.n_531.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_7.n_334.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_7.n_334.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_8.n_315.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_8.n_315.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_9.n_227.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_9.n_227.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_0.n_1302.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_0.n_1302.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_10.n_45.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_10.n_45.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_11.n_42.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_11.n_42.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_12.n_31.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_12.n_31.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_13.n_30.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_13.n_30.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_14.n_22.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_14.n_22.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_1.n_865.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_1.n_865.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_2.n_532.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_2.n_532.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_3.n_346.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_3.n_346.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_4.n_137.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_4.n_137.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_5.n_123.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_5.n_123.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_6.n_121.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_6.n_121.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_7.n_80.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_7.n_80.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_8.n_47.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_8.n_47.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_9.n_46.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_9.n_46.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_0.n_15215.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_0.n_15215.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_10.n_70.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_10.n_70.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_11.n_64.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_11.n_64.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_12.n_55.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_12.n_55.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_13.n_45.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_13.n_45.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_14.n_40.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_14.n_40.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_15.n_37.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_15.n_37.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_16.n_36.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_16.n_36.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_1.n_3051.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_1.n_3051.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_2.n_1793.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_2.n_1793.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_3.n_698.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_3.n_698.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_4.n_271.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_4.n_271.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_5.n_270.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_5.n_270.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_6.n_253.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_6.n_253.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_7.n_241.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_7.n_241.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_8.n_133.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_8.n_133.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_9.n_78.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_9.n_78.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_0.n_1746.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_0.n_1746.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_10.n_112.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_10.n_112.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_11.n_99.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_11.n_99.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_12.n_71.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_12.n_71.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_13.n_59.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_13.n_59.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_14.n_56.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_14.n_56.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_15.n_33.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_15.n_33.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_16.n_30.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_16.n_30.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_1.n_1627.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_1.n_1627.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_2.n_882.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_2.n_882.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_3.n_818.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_3.n_818.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_4.n_324.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_4.n_324.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_5.n_242.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_5.n_242.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_6.n_223.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_6.n_223.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_7.n_185.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_7.n_185.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_8.n_180.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_8.n_180.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_9.n_130.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_9.n_130.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_0.n_3706.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_0.n_3706.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_10.n_129.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_10.n_129.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_11.n_121.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_11.n_121.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_12.n_40.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_12.n_40.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_13.n_40.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_13.n_40.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_14.n_30.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_14.n_30.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_15.n_28.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_15.n_28.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_16.n_25.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_16.n_25.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_17.n_21.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_17.n_21.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_1.n_2391.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_1.n_2391.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_2.n_2230.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_2.n_2230.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_3.n_1836.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_3.n_1836.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_4.n_428.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_4.n_428.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_5.n_237.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_5.n_237.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_6.n_216.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_6.n_216.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_7.n_159.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_7.n_159.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_8.n_156.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_8.n_156.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_9.n_129.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_9.n_129.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_0.n_12988.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_0.n_12988.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_10.n_66.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_10.n_66.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_11.n_56.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_11.n_56.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_12.n_31.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_12.n_31.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_1.n_9869.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_1.n_9869.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_2.n_5863.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_2.n_5863.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_3.n_977.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_3.n_977.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_4.n_893.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_4.n_893.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_5.n_598.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_5.n_598.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_6.n_366.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_6.n_366.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_7.n_169.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_7.n_169.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_8.n_145.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_8.n_145.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_9.n_126.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_9.n_126.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_0.n_1871.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_0.n_1871.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_10.n_26.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_10.n_26.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_1.n_1840.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_1.n_1840.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_2.n_1321.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_2.n_1321.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_3.n_551.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_3.n_551.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_4.n_65.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_4.n_65.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_5.n_60.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_5.n_60.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_6.n_59.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_6.n_59.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_7.n_58.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_7.n_58.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_8.n_38.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_8.n_38.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_9.n_29.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_9.n_29.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_0.n_1755.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_0.n_1755.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_10.n_25.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_10.n_25.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_1.n_1069.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_1.n_1069.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_2.n_991.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_2.n_991.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_3.n_138.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_3.n_138.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_4.n_106.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_4.n_106.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_5.n_74.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_5.n_74.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_6.n_34.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_6.n_34.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_7.n_29.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_7.n_29.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_8.n_27.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_8.n_27.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_9.n_27.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_9.n_27.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_0.n_2840.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_0.n_2840.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_10.n_76.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_10.n_76.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_11.n_60.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_11.n_60.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_12.n_42.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_12.n_42.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_1.n_1291.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_1.n_1291.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_2.n_390.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_2.n_390.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_3.n_274.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_3.n_274.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_4.n_268.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_4.n_268.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_5.n_166.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_5.n_166.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_6.n_145.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_6.n_145.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_7.n_120.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_7.n_120.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_8.n_113.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_8.n_113.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_9.n_93.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_9.n_93.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_0.n_6096.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_0.n_6096.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_10.n_84.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_10.n_84.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_11.n_56.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_11.n_56.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_12.n_52.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_12.n_52.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_13.n_32.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_13.n_32.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_14.n_22.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_14.n_22.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_15.n_20.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_15.n_20.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_1.n_3900.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_1.n_3900.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_2.n_3690.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_2.n_3690.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_3.n_467.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_3.n_467.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_4.n_274.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_4.n_274.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_5.n_167.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_5.n_167.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_6.n_126.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_6.n_126.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_7.n_115.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_7.n_115.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_8.n_96.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_8.n_96.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_9.n_89.CWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_9.n_89.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_0.n_487.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_0.n_487.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_1.n_92.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_1.n_92.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_2.n_75.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_2.n_75.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_3.n_55.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_3.n_55.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_4.n_37.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_4.n_37.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_5.n_34.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_5.n_34.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_6.n_25.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_6.n_25.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_7.n_21.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_7.n_21.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_0.n_2755.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_0.n_2755.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_10.n_244.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_10.n_244.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_11.n_242.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_11.n_242.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_12.n_166.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_12.n_166.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_13.n_148.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_13.n_148.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_14.n_91.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_14.n_91.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_15.n_89.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_15.n_89.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_16.n_43.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_16.n_43.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_1.n_2128.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_1.n_2128.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_2.n_1361.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_2.n_1361.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_3.n_499.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_3.n_499.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_4.n_489.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_4.n_489.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_5.n_407.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_5.n_407.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_6.n_383.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_6.n_383.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_7.n_368.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_7.n_368.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_8.n_362.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_8.n_362.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_9.n_286.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_9.n_286.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_0.n_487.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_0.n_487.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_1.n_92.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_1.n_92.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_2.n_75.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_2.n_75.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_3.n_55.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_3.n_55.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_4.n_37.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_4.n_37.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_5.n_34.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_5.n_34.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_6.n_25.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_6.n_25.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_7.n_21.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_7.n_21.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_0.n_2755.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_0.n_2755.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_10.n_244.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_10.n_244.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_11.n_242.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_11.n_242.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_12.n_166.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_12.n_166.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_13.n_148.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_13.n_148.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_14.n_91.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_14.n_91.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_15.n_89.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_15.n_89.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_16.n_43.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_16.n_43.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_1.n_2128.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_1.n_2128.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_2.n_1361.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_2.n_1361.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_4.n_489.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_4.n_489.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_5.n_407.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_5.n_407.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_6.n_383.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_6.n_383.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_7.n_368.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_7.n_368.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_8.n_362.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_8.n_362.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_9.n_286.CWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_9.n_286.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_0.n_3572.CWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_0.n_3572.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_10.n_179.CWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_10.n_179.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_11.n_164.CWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_11.n_164.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_12.n_157.CWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_12.n_157.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_13.n_151.CWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_13.n_151.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_14.n_137.CWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_14.n_137.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_15.n_91.CWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_15.n_91.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_16.n_85.CWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_16.n_85.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_17.n_81.CWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_17.n_81.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_18.n_80.CWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_18.n_80.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_19.n_55.CWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_19.n_55.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_1.n_3467.CWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_1.n_3467.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_20.n_49.CWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_20.n_49.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_21.n_25.CWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_21.n_25.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_2.n_2533.CWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_2.n_2533.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_4.n_506.CWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_4.n_506.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_9.n_188.CWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_9.n_188.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_2.n_2911.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_2.n_2911.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_3.n_2147.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_3.n_2147.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_4.n_1663.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_4.n_1663.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_5.n_1122.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_5.n_1122.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_6.n_849.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_6.n_849.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_7.n_638.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_7.n_638.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_8.n_592.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_8.n_592.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_9.n_564.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_9.n_564.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_0.n_182.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_0.n_182.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_10.n_63.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_10.n_63.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_11.n_62.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_11.n_62.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_12.n_47.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_12.n_47.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_13.n_33.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_13.n_33.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_14.n_30.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_14.n_30.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_15.n_29.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_15.n_29.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_1.n_181.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_1.n_181.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_2.n_160.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_2.n_160.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_3.n_144.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_3.n_144.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_4.n_144.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_4.n_144.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_5.n_129.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_5.n_129.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_6.n_117.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_6.n_117.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_7.n_95.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_7.n_95.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_8.n_79.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_8.n_79.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_9.n_78.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_9.n_78.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_0.n_13564.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_0.n_13564.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_10.n_29.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_10.n_29.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_1.n_6428.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_1.n_6428.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_2.n_1253.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_2.n_1253.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_3.n_1194.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_3.n_1194.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_4.n_951.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_4.n_951.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_5.n_114.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_5.n_114.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_6.n_105.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_6.n_105.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_7.n_30.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_7.n_30.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_9.n_29.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_9.n_29.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_0.n_182.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_0.n_182.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_10.n_63.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_10.n_63.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_11.n_62.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_11.n_62.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_12.n_47.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_12.n_47.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_13.n_33.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_13.n_33.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_14.n_30.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_14.n_30.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_15.n_29.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_15.n_29.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_1.n_181.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_1.n_181.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_2.n_160.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_2.n_160.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_3.n_144.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_3.n_144.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_4.n_144.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_4.n_144.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_5.n_129.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_5.n_129.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_6.n_117.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_6.n_117.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_7.n_95.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_7.n_95.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_8.n_79.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_8.n_79.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_9.n_78.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_9.n_78.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_0.n_13564.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_0.n_13564.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_10.n_29.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_10.n_29.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_1.n_6428.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_1.n_6428.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_2.n_1253.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_2.n_1253.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_4.n_951.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_4.n_951.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_9.n_29.CWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_9.n_29.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_0.n_819.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_0.n_819.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_0.n_230.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_0.n_230.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_10.n_27.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_10.n_27.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_1.n_142.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_1.n_142.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_2.n_139.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_2.n_139.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_3.n_131.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_3.n_131.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_4.n_97.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_4.n_97.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_5.n_93.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_5.n_93.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_6.n_74.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_6.n_74.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_7.n_68.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_7.n_68.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_8.n_53.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_8.n_53.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_9.n_30.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_9.n_30.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_0.n_4756.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_0.n_4756.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_1.n_484.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_1.n_484.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_2.n_456.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_2.n_456.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_3.n_359.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_3.n_359.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_4.n_195.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_4.n_195.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_5.n_190.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_5.n_190.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_6.n_131.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_6.n_131.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_7.n_75.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_7.n_75.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_8.n_48.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_8.n_48.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_0.n_537.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_0.n_537.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_1.n_513.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_1.n_513.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_2.n_505.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_2.n_505.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_0.n_819.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_0.n_819.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_1.n_812.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_1.n_812.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_2.n_425.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_2.n_425.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_3.n_224.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_3.n_224.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_4.n_197.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_4.n_197.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_5.n_154.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_5.n_154.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_6.n_100.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_6.n_100.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_7.n_32.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_7.n_32.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_8.n_25.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_8.n_25.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_9.n_22.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_9.n_22.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_10.n_27.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_10.n_27.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_2.n_139.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_2.n_139.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_3.n_131.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_3.n_131.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_4.n_97.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_4.n_97.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_5.n_93.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_5.n_93.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_6.n_74.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_6.n_74.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_7.n_68.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_7.n_68.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_8.n_53.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_8.n_53.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_9.n_30.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_9.n_30.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_0.n_4756.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_0.n_4756.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_1.n_484.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_1.n_484.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_2.n_456.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_2.n_456.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_3.n_359.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_3.n_359.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_4.n_195.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_4.n_195.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_5.n_190.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_5.n_190.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_6.n_131.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_6.n_131.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_7.n_75.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_7.n_75.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_8.n_48.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_8.n_48.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_0.n_537.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_0.n_537.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_1.n_513.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_1.n_513.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_2.n_505.CWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_2.n_505.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_0.n_637.CWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_0.n_637.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_10.n_40.CWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_10.n_40.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_11.n_33.CWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_11.n_33.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_12.n_30.CWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_12.n_30.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_2.n_90.CWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_2.n_90.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_3.n_89.CWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_3.n_89.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_4.n_68.CWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_4.n_68.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_5.n_61.CWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_5.n_61.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_6.n_60.CWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_6.n_60.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_7.n_49.CWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_7.n_49.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_8.n_45.CWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_8.n_45.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_0.n_3328.CWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_0.n_3328.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_0.n_7550.CWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_0.n_7550.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_10.n_296.CWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_10.n_296.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_11.n_208.CWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_11.n_208.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_12.n_207.CWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_12.n_207.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_13.n_122.CWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_13.n_122.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_14.n_116.CWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_14.n_116.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_15.n_93.CWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_15.n_93.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_16.n_47.CWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_16.n_47.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_17.n_39.CWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_17.n_39.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_18.n_34.CWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_18.n_34.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_19.n_31.CWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_19.n_31.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_1.n_4394.CWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_1.n_4394.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_20.n_31.CWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_20.n_31.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_21.n_26.CWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_21.n_26.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_22.n_21.CWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_22.n_21.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_2.n_2797.CWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_2.n_2797.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_3.n_2629.CWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_3.n_2629.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_4.n_1863.CWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_4.n_1863.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_5.n_989.CWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_5.n_989.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_6.n_637.CWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_6.n_637.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_8.n_412.CWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_8.n_412.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_13.n_43.CWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_13.n_43.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_9.n_349.CWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_9.n_349.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_0.n_3305.CWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_0.n_3305.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_10.n_30.CWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_10.n_30.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_1.n_2195.CWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_1.n_2195.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_2.n_1319.CWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_2.n_1319.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_3.n_839.CWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_3.n_839.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_4.n_621.CWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_4.n_621.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_5.n_457.CWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_5.n_457.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_6.n_322.CWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_6.n_322.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_7.n_136.CWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_7.n_136.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_8.n_80.CWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_8.n_80.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_9.n_67.CWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_9.n_67.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_0.n_13951.CWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_0.n_13951.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_10.n_102.CWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_10.n_102.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_11.n_58.CWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_11.n_58.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_12.n_48.CWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_12.n_48.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_13.n_31.CWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_13.n_31.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_14.n_28.CWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_14.n_28.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_15.n_22.CWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_15.n_22.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_1.n_4291.CWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_1.n_4291.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_2.n_1529.CWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_2.n_1529.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_3.n_1039.CWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_3.n_1039.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_4.n_896.CWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_4.n_896.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_7.n_227.CWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_7.n_227.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_8.n_152.CWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_8.n_152.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_9.n_116.CWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_9.n_116.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_8.n_90.CWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-201-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_8.n_90.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_9.n_83.CWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-201-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_9.n_83.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_0.n_1470.CWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-206-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_0.n_1470.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_1.n_1000.CWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-206-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_1.n_1000.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_2.n_923.CWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-206-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_2.n_923.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_3.n_425.CWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-206-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_3.n_425.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_4.n_312.CWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-206-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_4.n_312.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_5.n_305.CWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-206-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_5.n_305.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_6.n_220.CWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-206-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_6.n_220.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_7.n_175.CWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-206-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_7.n_175.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_8.n_90.CWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-206-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_8.n_90.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_9.n_83.CWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-206-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_9.n_83.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_0.n_468.CWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_0.n_468.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_10.n_56.CWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_10.n_56.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_1.n_399.CWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_1.n_399.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_2.n_300.CWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_2.n_300.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_3.n_247.CWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_3.n_247.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_4.n_171.CWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_4.n_171.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_5.n_169.CWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_5.n_169.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_6.n_153.CWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_6.n_153.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_7.n_97.CWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_7.n_97.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_8.n_84.CWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_8.n_84.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_9.n_61.CWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_9.n_61.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_0.n_592.CWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_0.n_592.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_10.n_75.CWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_10.n_75.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_11.n_68.CWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_11.n_68.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_12.n_55.CWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_12.n_55.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_13.n_52.CWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_13.n_52.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_14.n_43.CWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_14.n_43.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_15.n_36.CWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_15.n_36.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_16.n_27.CWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_16.n_27.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_17.n_27.CWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_17.n_27.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_18.n_24.CWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_18.n_24.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_1.n_504.CWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_1.n_504.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_2.n_122.CWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_2.n_122.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_3.n_111.CWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_3.n_111.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_4.n_106.CWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_4.n_106.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/INSM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_3.n_1830.CWM.meme motif-alignments-all-vs-all/INSM2/INSM2-201-vs-INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_3.n_1830.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/INSM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_4.n_774.CWM.meme motif-alignments-all-vs-all/INSM2/INSM2-201-vs-INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_4.n_774.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/INSM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_5.n_565.CWM.meme motif-alignments-all-vs-all/INSM2/INSM2-201-vs-INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_5.n_565.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/INSM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_6.n_480.CWM.meme motif-alignments-all-vs-all/INSM2/INSM2-201-vs-INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_6.n_480.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/INSM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_7.n_467.CWM.meme motif-alignments-all-vs-all/INSM2/INSM2-201-vs-INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_7.n_467.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/INSM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_8.n_293.CWM.meme motif-alignments-all-vs-all/INSM2/INSM2-201-vs-INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_8.n_293.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/INSM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_9.n_231.CWM.meme motif-alignments-all-vs-all/INSM2/INSM2-201-vs-INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_9.n_231.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_0.n_124.CWM.meme motif-alignments-all-vs-all/PRDM9/PRDM9-201-vs-PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_0.n_124.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_1.n_77.CWM.meme motif-alignments-all-vs-all/PRDM9/PRDM9-201-vs-PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_1.n_77.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_2.n_59.CWM.meme motif-alignments-all-vs-all/PRDM9/PRDM9-201-vs-PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_2.n_59.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_3.n_59.CWM.meme motif-alignments-all-vs-all/PRDM9/PRDM9-201-vs-PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_3.n_59.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_4.n_43.CWM.meme motif-alignments-all-vs-all/PRDM9/PRDM9-201-vs-PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_4.n_43.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_5.n_41.CWM.meme motif-alignments-all-vs-all/PRDM9/PRDM9-201-vs-PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_5.n_41.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_6.n_39.CWM.meme motif-alignments-all-vs-all/PRDM9/PRDM9-201-vs-PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_6.n_39.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_7.n_37.CWM.meme motif-alignments-all-vs-all/PRDM9/PRDM9-201-vs-PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_7.n_37.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_8.n_30.CWM.meme motif-alignments-all-vs-all/PRDM9/PRDM9-201-vs-PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_8.n_30.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_0.n_1153.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_0.n_1153.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_10.n_84.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_10.n_84.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_11.n_74.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_11.n_74.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_12.n_58.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_12.n_58.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_13.n_55.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_13.n_55.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_14.n_50.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_14.n_50.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_15.n_48.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_15.n_48.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_17.n_26.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_17.n_26.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_2.n_720.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_2.n_720.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_3.n_666.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_3.n_666.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_5.n_182.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_5.n_182.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_11.n_74.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_11.n_74.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_12.n_58.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_12.n_58.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_13.n_55.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_13.n_55.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_14.n_50.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_14.n_50.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_15.n_48.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_15.n_48.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_16.n_43.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_16.n_43.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_17.n_26.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_17.n_26.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_1.n_906.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_1.n_906.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_2.n_720.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_2.n_720.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_3.n_666.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_3.n_666.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_4.n_325.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_4.n_325.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_5.n_182.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_5.n_182.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_6.n_137.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_6.n_137.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_7.n_121.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_7.n_121.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_8.n_118.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_8.n_118.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_9.n_103.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_9.n_103.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_0.n_1153.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_0.n_1153.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_10.n_84.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_10.n_84.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_11.n_74.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_11.n_74.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_12.n_58.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_12.n_58.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_13.n_55.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_13.n_55.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_14.n_50.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_14.n_50.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_15.n_48.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_15.n_48.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_16.n_43.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_16.n_43.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_17.n_26.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_17.n_26.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_1.n_906.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_1.n_906.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_2.n_720.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_2.n_720.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_3.n_666.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_3.n_666.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_4.n_325.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_4.n_325.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_5.n_182.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_5.n_182.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_6.n_137.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_6.n_137.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_7.n_121.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_7.n_121.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_8.n_118.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_8.n_118.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_9.n_103.CWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_9.n_103.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_0.n_8793.CWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_0.n_8793.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_10.n_961.CWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_10.n_961.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_12.n_417.CWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_12.n_417.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_18.n_143.CWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_18.n_143.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_20.n_38.CWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_20.n_38.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_3.n_2033.CWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_3.n_2033.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_5.n_508.CWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_5.n_508.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_8.n_256.CWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_8.n_256.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_10.n_399.CWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_10.n_399.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_11.n_346.CWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_11.n_346.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_8.n_25.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_8.n_25.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_9.n_20.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_9.n_20.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_0.n_1619.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_0.n_1619.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_10.n_669.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_10.n_669.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_11.n_644.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_11.n_644.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_12.n_642.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_12.n_642.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_13.n_634.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_13.n_634.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_14.n_614.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_14.n_614.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_15.n_610.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_15.n_610.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_16.n_597.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_16.n_597.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_17.n_559.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_17.n_559.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_18.n_536.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_18.n_536.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_19.n_529.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_19.n_529.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_1.n_1197.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_1.n_1197.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_20.n_523.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_20.n_523.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_21.n_486.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_21.n_486.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_22.n_482.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_22.n_482.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_23.n_478.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_23.n_478.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_24.n_464.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_24.n_464.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_25.n_454.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_25.n_454.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_26.n_454.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_26.n_454.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_27.n_452.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_27.n_452.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_28.n_450.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_28.n_450.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_29.n_354.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_29.n_354.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_2.n_1118.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_2.n_1118.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_30.n_339.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_30.n_339.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_31.n_338.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_31.n_338.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_32.n_337.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_32.n_337.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_33.n_331.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_33.n_331.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_34.n_328.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_34.n_328.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_35.n_322.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_35.n_322.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_36.n_298.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_36.n_298.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_37.n_295.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_37.n_295.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_38.n_294.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_38.n_294.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_39.n_288.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_39.n_288.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_3.n_989.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_3.n_989.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_40.n_278.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_40.n_278.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_41.n_273.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_41.n_273.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_42.n_270.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_42.n_270.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_43.n_268.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_43.n_268.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_44.n_264.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_44.n_264.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_45.n_250.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_45.n_250.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_46.n_242.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_46.n_242.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_47.n_199.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_47.n_199.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_48.n_198.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_48.n_198.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_49.n_167.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_49.n_167.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_4.n_958.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_4.n_958.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_50.n_162.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_50.n_162.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_51.n_157.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_51.n_157.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_52.n_138.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_52.n_138.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_53.n_37.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_53.n_37.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_5.n_880.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_5.n_880.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_6.n_810.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_6.n_810.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_7.n_687.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_7.n_687.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_8.n_686.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_8.n_686.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_9.n_682.CWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_9.n_682.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_0.n_4104.CWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_0.n_4104.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_10.n_43.CWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_10.n_43.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_11.n_35.CWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_11.n_35.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_1.n_1183.CWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_1.n_1183.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_2.n_899.CWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_2.n_899.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_3.n_774.CWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_3.n_774.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_4.n_737.CWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_4.n_737.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_5.n_482.CWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_5.n_482.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_6.n_399.CWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_6.n_399.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_7.n_343.CWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_7.n_343.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_8.n_180.CWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_8.n_180.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_9.n_47.CWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_9.n_47.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_0.n_4104.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_0.n_4104.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_10.n_43.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_10.n_43.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_11.n_35.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_11.n_35.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_1.n_1183.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_1.n_1183.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_2.n_899.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_2.n_899.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_3.n_774.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_3.n_774.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_4.n_737.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_4.n_737.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_5.n_482.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_5.n_482.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_6.n_399.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_6.n_399.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_7.n_343.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_7.n_343.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_8.n_180.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_8.n_180.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_9.n_47.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_9.n_47.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_0.n_6531.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_0.n_6531.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_10.n_658.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_10.n_658.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_11.n_607.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_11.n_607.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_12.n_438.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_12.n_438.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_13.n_395.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_13.n_395.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_14.n_362.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_14.n_362.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_15.n_297.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_15.n_297.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_16.n_187.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_16.n_187.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_17.n_158.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_17.n_158.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_18.n_138.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_18.n_138.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_19.n_129.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_19.n_129.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_1.n_5082.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_1.n_5082.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_20.n_72.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_20.n_72.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_21.n_50.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_21.n_50.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_22.n_42.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_22.n_42.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_23.n_35.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_23.n_35.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_24.n_31.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_24.n_31.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_25.n_23.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_25.n_23.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_26.n_23.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_26.n_23.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_27.n_22.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_27.n_22.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_28.n_21.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_28.n_21.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_2.n_4882.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_2.n_4882.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_3.n_4644.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_3.n_4644.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_4.n_3656.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_4.n_3656.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_5.n_3411.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_5.n_3411.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_6.n_1441.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_6.n_1441.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_7.n_1388.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_7.n_1388.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_8.n_1283.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_8.n_1283.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_9.n_821.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_9.n_821.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_0.n_925.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_0.n_925.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_10.n_21.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_10.n_21.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_1.n_226.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_1.n_226.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_2.n_219.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_2.n_219.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_3.n_146.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_3.n_146.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_4.n_123.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_4.n_123.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_5.n_110.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_5.n_110.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_6.n_110.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_6.n_110.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_7.n_70.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_7.n_70.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_8.n_55.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_8.n_55.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_9.n_43.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_9.n_43.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_0.n_4104.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_0.n_4104.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_10.n_43.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_10.n_43.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_11.n_35.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_11.n_35.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_1.n_1183.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_1.n_1183.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_2.n_899.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_2.n_899.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_3.n_774.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_3.n_774.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_4.n_737.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_4.n_737.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_5.n_482.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_5.n_482.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_6.n_399.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_6.n_399.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_7.n_343.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_7.n_343.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_8.n_180.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_8.n_180.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_9.n_47.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_9.n_47.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_0.n_6531.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_0.n_6531.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_10.n_658.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_10.n_658.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_11.n_607.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_11.n_607.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_12.n_438.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_12.n_438.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_13.n_395.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_13.n_395.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_14.n_362.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_14.n_362.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_15.n_297.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_15.n_297.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_16.n_187.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_16.n_187.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_17.n_158.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_17.n_158.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_18.n_138.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_18.n_138.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_19.n_129.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_19.n_129.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_1.n_5082.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_1.n_5082.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_20.n_72.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_20.n_72.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_21.n_50.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_21.n_50.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_22.n_42.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_22.n_42.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_23.n_35.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_23.n_35.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_24.n_31.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_24.n_31.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_25.n_23.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_25.n_23.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_26.n_23.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_26.n_23.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_27.n_22.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_27.n_22.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_28.n_21.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_28.n_21.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_2.n_4882.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_2.n_4882.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_3.n_4644.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_3.n_4644.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_4.n_3656.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_4.n_3656.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_5.n_3411.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_5.n_3411.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_6.n_1441.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_6.n_1441.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_7.n_1388.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_7.n_1388.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_8.n_1283.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_8.n_1283.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_9.n_821.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_9.n_821.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_0.n_925.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_0.n_925.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_10.n_21.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_10.n_21.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_1.n_226.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_1.n_226.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_2.n_219.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_2.n_219.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_3.n_146.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_3.n_146.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_4.n_123.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_4.n_123.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_5.n_110.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_5.n_110.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_6.n_110.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_6.n_110.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_7.n_70.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_7.n_70.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_8.n_55.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_8.n_55.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_9.n_43.CWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_9.n_43.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_0.n_1881.CWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_0.n_1881.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_10.n_197.CWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_10.n_197.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_11.n_186.CWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_11.n_186.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_12.n_157.CWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_12.n_157.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_13.n_126.CWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_13.n_126.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_14.n_119.CWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_14.n_119.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_15.n_87.CWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_15.n_87.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_16.n_67.CWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_16.n_67.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_17.n_66.CWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_17.n_66.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_18.n_50.CWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_18.n_50.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_19.n_45.CWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_19.n_45.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_1.n_1316.CWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_1.n_1316.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_20.n_44.CWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_20.n_44.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_21.n_35.CWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_21.n_35.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_22.n_31.CWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_22.n_31.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_2.n_1056.CWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_2.n_1056.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_3.n_697.CWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_3.n_697.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_4.n_642.CWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_4.n_642.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_5.n_551.CWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_5.n_551.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_6.n_498.CWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_6.n_498.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_7.n_496.CWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_7.n_496.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_8.n_237.CWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_8.n_237.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_9.n_222.CWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_9.n_222.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_0.n_990.CWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_0.n_990.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_10.n_48.CWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_10.n_48.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_11.n_42.CWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_11.n_42.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_12.n_40.CWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_12.n_40.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_13.n_38.CWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_13.n_38.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_14.n_20.CWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_14.n_20.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_1.n_317.CWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_1.n_317.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_2.n_290.CWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_2.n_290.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_3.n_180.CWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_3.n_180.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_4.n_165.CWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_4.n_165.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_5.n_157.CWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_5.n_157.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_6.n_107.CWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_6.n_107.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_7.n_101.CWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_7.n_101.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_8.n_69.CWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_8.n_69.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_9.n_50.CWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_9.n_50.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_0.n_94.CWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_0.n_94.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_1.n_57.CWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_1.n_57.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_2.n_36.CWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_2.n_36.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_3.n_35.CWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_3.n_35.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_4.n_34.CWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_4.n_34.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_5.n_31.CWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_5.n_31.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_6.n_24.CWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_6.n_24.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_0.n_1810.CWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_0.n_1810.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_10.n_911.CWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_10.n_911.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_11.n_902.CWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_11.n_902.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_12.n_900.CWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_12.n_900.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_13.n_883.CWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_13.n_883.CWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_14.n_855.CWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_14.n_855.CWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_0.n_2618.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_0.n_2618.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_10.n_35.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_10.n_35.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_1.n_2597.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_1.n_2597.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_2.n_1307.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_2.n_1307.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_3.n_376.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_3.n_376.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_4.n_320.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_4.n_320.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_5.n_249.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_5.n_249.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_6.n_205.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_6.n_205.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_7.n_198.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_7.n_198.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_8.n_104.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_8.n_104.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_9.n_78.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_9.n_78.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_0.n_1553.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_0.n_1553.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_10.n_22.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_10.n_22.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_1.n_1193.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_1.n_1193.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_2.n_1179.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_2.n_1179.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_3.n_903.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_3.n_903.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_4.n_461.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_4.n_461.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_5.n_224.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_5.n_224.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_6.n_142.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_6.n_142.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_7.n_129.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_7.n_129.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_8.n_125.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_8.n_125.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_9.n_56.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_9.n_56.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_0.n_2618.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_0.n_2618.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_10.n_35.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_10.n_35.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_1.n_2597.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_1.n_2597.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_2.n_1307.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_2.n_1307.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_3.n_376.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_3.n_376.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_4.n_320.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_4.n_320.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_5.n_249.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_5.n_249.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_6.n_205.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_6.n_205.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_7.n_198.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_7.n_198.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_8.n_104.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_8.n_104.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_9.n_78.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_9.n_78.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_0.n_1553.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_0.n_1553.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_10.n_22.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_10.n_22.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_1.n_1193.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_1.n_1193.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_3.n_903.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_3.n_903.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_4.n_461.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_4.n_461.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_5.n_224.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_5.n_224.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_6.n_142.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_6.n_142.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_7.n_129.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_7.n_129.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_8.n_125.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_8.n_125.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_9.n_56.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_9.n_56.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/YY2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_0.n_5039.PWM.meme motif-alignments-all-vs-all/YY2/YY2-201-vs-YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_0.n_5039.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/YY2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_1.n_596.PWM.meme motif-alignments-all-vs-all/YY2/YY2-201-vs-YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_1.n_596.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/YY2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_2.n_313.PWM.meme motif-alignments-all-vs-all/YY2/YY2-201-vs-YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_2.n_313.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/YY2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_3.n_220.PWM.meme motif-alignments-all-vs-all/YY2/YY2-201-vs-YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_3.n_220.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/YY2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_4.n_198.PWM.meme motif-alignments-all-vs-all/YY2/YY2-201-vs-YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_4.n_198.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/YY2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_5.n_144.PWM.meme motif-alignments-all-vs-all/YY2/YY2-201-vs-YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_5.n_144.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/YY2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_6.n_52.PWM.meme motif-alignments-all-vs-all/YY2/YY2-201-vs-YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_6.n_52.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/YY2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_7.n_44.PWM.meme motif-alignments-all-vs-all/YY2/YY2-201-vs-YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_7.n_44.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLIS2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_0.n_16134.PWM.meme motif-alignments-all-vs-all/GLIS2/GLIS2-201-vs-GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_0.n_16134.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLIS2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_10.n_22.PWM.meme motif-alignments-all-vs-all/GLIS2/GLIS2-201-vs-GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_10.n_22.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLIS2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_1.n_888.PWM.meme motif-alignments-all-vs-all/GLIS2/GLIS2-201-vs-GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_1.n_888.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLIS2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_2.n_765.PWM.meme motif-alignments-all-vs-all/GLIS2/GLIS2-201-vs-GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_2.n_765.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLIS2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_3.n_629.PWM.meme motif-alignments-all-vs-all/GLIS2/GLIS2-201-vs-GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_3.n_629.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLIS2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_4.n_306.PWM.meme motif-alignments-all-vs-all/GLIS2/GLIS2-201-vs-GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_4.n_306.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLIS2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_5.n_28.PWM.meme motif-alignments-all-vs-all/GLIS2/GLIS2-201-vs-GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_5.n_28.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLIS2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_6.n_25.PWM.meme motif-alignments-all-vs-all/GLIS2/GLIS2-201-vs-GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_6.n_25.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLIS2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_7.n_25.PWM.meme motif-alignments-all-vs-all/GLIS2/GLIS2-201-vs-GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_7.n_25.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLIS2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_8.n_24.PWM.meme motif-alignments-all-vs-all/GLIS2/GLIS2-201-vs-GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_8.n_24.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLIS2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_9.n_23.PWM.meme motif-alignments-all-vs-all/GLIS2/GLIS2-201-vs-GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_9.n_23.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_0.n_24215.PWM.meme motif-alignments-all-vs-all/SCRT2/SCRT2-201-vs-SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_0.n_24215.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_10.n_37.PWM.meme motif-alignments-all-vs-all/SCRT2/SCRT2-201-vs-SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_10.n_37.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_11.n_25.PWM.meme motif-alignments-all-vs-all/SCRT2/SCRT2-201-vs-SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_11.n_25.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_1.n_1059.PWM.meme motif-alignments-all-vs-all/SCRT2/SCRT2-201-vs-SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_1.n_1059.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_2.n_587.PWM.meme motif-alignments-all-vs-all/SCRT2/SCRT2-201-vs-SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_2.n_587.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_3.n_444.PWM.meme motif-alignments-all-vs-all/SCRT2/SCRT2-201-vs-SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_3.n_444.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_4.n_275.PWM.meme motif-alignments-all-vs-all/SCRT2/SCRT2-201-vs-SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_4.n_275.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_5.n_184.PWM.meme motif-alignments-all-vs-all/SCRT2/SCRT2-201-vs-SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_5.n_184.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_6.n_157.PWM.meme motif-alignments-all-vs-all/SCRT2/SCRT2-201-vs-SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_6.n_157.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_7.n_128.PWM.meme motif-alignments-all-vs-all/SCRT2/SCRT2-201-vs-SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_7.n_128.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_8.n_92.PWM.meme motif-alignments-all-vs-all/SCRT2/SCRT2-201-vs-SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_8.n_92.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_0.n_7917.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_0.n_7917.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_10.n_63.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_10.n_63.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_11.n_44.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_11.n_44.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_12.n_30.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_12.n_30.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_13.n_23.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_13.n_23.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_1.n_7374.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_1.n_7374.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_2.n_4419.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_2.n_4419.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_3.n_2913.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_3.n_2913.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_4.n_2529.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_4.n_2529.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_5.n_2001.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_5.n_2001.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_6.n_1460.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_6.n_1460.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_7.n_825.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_7.n_825.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_8.n_388.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_8.n_388.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_9.n_70.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_9.n_70.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_0.n_409.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_0.n_409.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_1.n_197.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_1.n_197.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_2.n_121.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_2.n_121.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_3.n_48.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_3.n_48.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_4.n_47.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_4.n_47.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_5.n_42.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_5.n_42.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_6.n_39.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_6.n_39.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_7.n_37.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_7.n_37.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_8.n_34.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_8.n_34.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_9.n_27.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_9.n_27.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_0.n_178.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_0.n_178.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_1.n_139.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_1.n_139.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_2.n_109.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_2.n_109.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_3.n_88.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_3.n_88.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_4.n_75.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_4.n_75.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_5.n_65.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_5.n_65.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_6.n_62.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_6.n_62.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_7.n_39.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_7.n_39.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_8.n_30.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_8.n_30.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_9.n_29.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_9.n_29.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_0.n_2026.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_0.n_2026.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_10.n_204.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_10.n_204.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_11.n_148.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_11.n_148.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_12.n_94.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_12.n_94.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_13.n_70.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_13.n_70.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_1.n_1471.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_1.n_1471.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_2.n_1412.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_2.n_1412.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_3.n_1088.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_3.n_1088.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_4.n_632.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_4.n_632.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_5.n_357.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_5.n_357.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_6.n_346.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_6.n_346.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_7.n_328.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_7.n_328.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_8.n_239.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_8.n_239.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_9.n_207.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_9.n_207.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_0.n_7917.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_0.n_7917.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_10.n_63.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_10.n_63.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_11.n_44.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_11.n_44.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_12.n_30.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_12.n_30.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_13.n_23.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_13.n_23.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_1.n_7374.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_1.n_7374.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_2.n_4419.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_2.n_4419.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_3.n_2913.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_3.n_2913.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_4.n_2529.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_4.n_2529.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_5.n_2001.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_5.n_2001.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_6.n_1460.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_6.n_1460.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_7.n_825.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_7.n_825.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_8.n_388.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_8.n_388.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_9.n_70.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_9.n_70.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_0.n_409.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_0.n_409.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_1.n_197.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_1.n_197.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_2.n_121.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_2.n_121.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_3.n_48.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_3.n_48.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_4.n_47.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_4.n_47.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_5.n_42.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_5.n_42.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_6.n_39.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_6.n_39.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_7.n_37.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_7.n_37.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_8.n_34.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_8.n_34.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_9.n_27.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_9.n_27.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_0.n_178.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_0.n_178.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_1.n_139.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_1.n_139.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_2.n_109.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_2.n_109.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_3.n_88.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_3.n_88.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_4.n_75.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_4.n_75.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_5.n_65.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_5.n_65.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_6.n_62.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_6.n_62.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_7.n_39.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_7.n_39.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_8.n_30.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_8.n_30.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_9.n_29.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_9.n_29.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_0.n_2026.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_0.n_2026.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_10.n_204.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_10.n_204.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_11.n_148.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_11.n_148.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_12.n_94.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_12.n_94.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_13.n_70.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_13.n_70.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_1.n_1471.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_1.n_1471.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_2.n_1412.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_2.n_1412.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_3.n_1088.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_3.n_1088.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_4.n_632.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_4.n_632.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_5.n_357.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_5.n_357.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_6.n_346.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_6.n_346.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_7.n_328.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_7.n_328.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_8.n_239.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_8.n_239.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_9.n_207.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_9.n_207.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_0.n_7917.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_0.n_7917.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_10.n_63.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_10.n_63.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_11.n_44.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_11.n_44.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_12.n_30.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_12.n_30.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_13.n_23.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_13.n_23.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_1.n_7374.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_1.n_7374.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_2.n_4419.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_2.n_4419.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_3.n_2913.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_3.n_2913.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_4.n_2529.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_4.n_2529.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_5.n_2001.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_5.n_2001.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_6.n_1460.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_6.n_1460.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_7.n_825.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_7.n_825.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_8.n_388.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_8.n_388.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_9.n_70.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_9.n_70.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_0.n_409.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_0.n_409.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_1.n_197.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_1.n_197.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_2.n_121.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_2.n_121.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_3.n_48.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_3.n_48.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_4.n_47.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_4.n_47.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_5.n_42.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_5.n_42.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_6.n_39.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_6.n_39.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_7.n_37.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_7.n_37.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_8.n_34.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_8.n_34.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_9.n_27.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_9.n_27.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_0.n_178.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_0.n_178.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_1.n_139.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_1.n_139.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_2.n_109.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_2.n_109.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_3.n_88.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_3.n_88.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_4.n_75.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_4.n_75.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_5.n_65.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_5.n_65.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_6.n_62.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_6.n_62.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_7.n_39.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_7.n_39.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_8.n_30.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_8.n_30.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_9.n_29.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_9.n_29.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_0.n_2026.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_0.n_2026.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_10.n_204.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_10.n_204.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_11.n_148.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_11.n_148.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_12.n_94.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_12.n_94.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_13.n_70.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_13.n_70.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_1.n_1471.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_1.n_1471.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_2.n_1412.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_2.n_1412.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_3.n_1088.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_3.n_1088.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_4.n_632.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_4.n_632.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_5.n_357.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_5.n_357.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_6.n_346.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_6.n_346.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_7.n_328.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_7.n_328.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_8.n_239.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_8.n_239.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_9.n_207.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_9.n_207.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_0.n_7917.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_0.n_7917.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_10.n_63.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_10.n_63.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_11.n_44.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_11.n_44.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_12.n_30.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_12.n_30.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_13.n_23.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_13.n_23.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_1.n_7374.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_1.n_7374.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_2.n_4419.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_2.n_4419.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_3.n_2913.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_3.n_2913.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_4.n_2529.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_4.n_2529.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_5.n_2001.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_5.n_2001.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_6.n_1460.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_6.n_1460.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_7.n_825.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_7.n_825.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_8.n_388.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_8.n_388.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_9.n_70.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_9.n_70.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_0.n_409.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_0.n_409.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_1.n_197.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_1.n_197.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_2.n_121.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_2.n_121.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_3.n_48.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_3.n_48.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_4.n_47.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_4.n_47.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_5.n_42.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_5.n_42.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_6.n_39.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_6.n_39.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_7.n_37.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_7.n_37.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_8.n_34.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_8.n_34.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_9.n_27.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_9.n_27.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_0.n_178.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_0.n_178.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_1.n_139.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_1.n_139.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_2.n_109.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_2.n_109.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_3.n_88.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_3.n_88.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_4.n_75.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_4.n_75.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_5.n_65.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_5.n_65.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_6.n_62.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_6.n_62.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_7.n_39.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_7.n_39.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_8.n_30.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_8.n_30.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_9.n_29.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_9.n_29.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_0.n_2026.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_0.n_2026.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_10.n_204.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_10.n_204.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_11.n_148.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_11.n_148.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_12.n_94.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_12.n_94.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_13.n_70.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_13.n_70.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_1.n_1471.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_1.n_1471.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_2.n_1412.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_2.n_1412.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_3.n_1088.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_3.n_1088.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_4.n_632.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_4.n_632.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_5.n_357.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_5.n_357.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_6.n_346.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_6.n_346.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_7.n_328.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_7.n_328.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_8.n_239.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_8.n_239.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_9.n_207.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_9.n_207.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_0.n_1000.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_0.n_1000.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_10.n_168.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_10.n_168.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_11.n_87.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_11.n_87.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_12.n_72.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_12.n_72.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_13.n_66.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_13.n_66.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_14.n_60.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_14.n_60.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_15.n_49.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_15.n_49.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_16.n_45.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_16.n_45.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_17.n_35.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_17.n_35.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_18.n_21.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_18.n_21.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_19.n_21.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_19.n_21.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_1.n_598.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_1.n_598.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_2.n_383.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_2.n_383.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_3.n_364.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_3.n_364.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_4.n_332.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_4.n_332.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_5.n_291.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_5.n_291.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_6.n_241.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_6.n_241.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_8.n_179.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_8.n_179.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_9.n_172.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_9.n_172.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_0.n_1000.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_0.n_1000.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_10.n_168.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_10.n_168.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_11.n_87.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_11.n_87.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_12.n_72.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_12.n_72.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_13.n_66.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_13.n_66.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_14.n_60.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_14.n_60.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_15.n_49.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_15.n_49.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_16.n_45.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_16.n_45.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_1.n_598.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_1.n_598.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_2.n_383.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_2.n_383.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_3.n_364.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_3.n_364.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_4.n_332.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_4.n_332.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_5.n_291.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_5.n_291.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_6.n_241.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_6.n_241.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_7.n_230.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_7.n_230.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_8.n_179.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_8.n_179.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_9.n_172.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_9.n_172.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_0.n_1000.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_0.n_1000.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_10.n_168.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_10.n_168.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_11.n_87.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_11.n_87.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_12.n_72.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_12.n_72.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_13.n_66.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_13.n_66.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_14.n_60.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_14.n_60.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_15.n_49.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_15.n_49.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_16.n_45.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_16.n_45.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_17.n_35.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_17.n_35.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_18.n_21.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_18.n_21.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_19.n_21.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_19.n_21.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_1.n_598.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_1.n_598.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_2.n_383.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_2.n_383.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_3.n_364.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_3.n_364.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_4.n_332.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_4.n_332.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_5.n_291.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_5.n_291.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_6.n_241.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_6.n_241.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_7.n_230.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_7.n_230.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_8.n_179.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_8.n_179.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_9.n_172.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_9.n_172.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_0.n_1000.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_0.n_1000.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_10.n_168.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_10.n_168.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_11.n_87.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_11.n_87.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_12.n_72.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_12.n_72.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_19.n_21.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_19.n_21.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_1.n_598.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_1.n_598.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_2.n_383.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_2.n_383.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_3.n_364.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_3.n_364.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_4.n_332.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_4.n_332.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_5.n_291.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_5.n_291.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_6.n_241.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_6.n_241.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_7.n_230.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_7.n_230.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_8.n_179.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_8.n_179.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_9.n_172.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_9.n_172.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_0.n_1000.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_0.n_1000.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_10.n_168.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_10.n_168.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_11.n_87.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_11.n_87.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_12.n_72.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_12.n_72.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_13.n_66.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_13.n_66.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_14.n_60.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_14.n_60.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_15.n_49.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_15.n_49.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_16.n_45.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_16.n_45.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_17.n_35.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_17.n_35.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_18.n_21.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_18.n_21.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_19.n_21.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_19.n_21.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_1.n_598.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_1.n_598.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_2.n_383.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_2.n_383.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_3.n_364.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_3.n_364.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_4.n_332.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_4.n_332.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_5.n_291.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_5.n_291.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_6.n_241.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_6.n_241.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_7.n_230.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_7.n_230.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_8.n_179.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_8.n_179.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_9.n_172.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_9.n_172.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-22Rv1-ENCSR246MLJ.bestfold.profile.pattern_0.n_27.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-22Rv1-ENCSR246MLJ.bestfold.profile.pattern_0.n_27.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-22Rv1-ENCSR246MLJ.bestfold.profile.pattern_1.n_23.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-22Rv1-ENCSR246MLJ.bestfold.profile.pattern_1.n_23.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-22Rv1-ENCSR246MLJ.bestfold.profile.pattern_2.n_22.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-22Rv1-ENCSR246MLJ.bestfold.profile.pattern_2.n_22.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-22Rv1-ENCSR246MLJ.bestfold.profile.pattern_3.n_21.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-22Rv1-ENCSR246MLJ.bestfold.profile.pattern_3.n_21.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-22Rv1-ENCSR246MLJ.bestfold.profile.pattern_4.n_20.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-22Rv1-ENCSR246MLJ.bestfold.profile.pattern_4.n_20.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_0.n_9230.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_0.n_9230.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_2.n_261.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_2.n_261.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_4.n_123.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_4.n_123.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_5.n_84.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_5.n_84.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_6.n_66.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_6.n_66.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_7.n_29.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_7.n_29.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_8.n_26.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_8.n_26.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_0.n_12729.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_0.n_12729.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_1.n_177.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_1.n_177.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_2.n_94.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_2.n_94.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_3.n_50.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_3.n_50.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_4.n_34.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_4.n_34.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_5.n_25.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_5.n_25.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_0.n_6751.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_0.n_6751.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_10.n_149.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_10.n_149.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_11.n_99.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_11.n_99.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_12.n_74.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_12.n_74.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_13.n_67.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_13.n_67.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_14.n_61.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_14.n_61.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_15.n_59.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_15.n_59.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_16.n_55.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_16.n_55.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_17.n_51.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_17.n_51.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_18.n_47.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_18.n_47.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_19.n_45.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_19.n_45.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_1.n_2378.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_1.n_2378.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_20.n_45.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_20.n_45.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_21.n_30.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_21.n_30.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_22.n_25.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_22.n_25.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_23.n_25.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_23.n_25.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_2.n_353.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_2.n_353.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_3.n_291.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_3.n_291.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_4.n_245.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_4.n_245.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_5.n_233.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_5.n_233.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_6.n_218.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_6.n_218.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_7.n_191.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_7.n_191.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_8.n_182.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_8.n_182.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_9.n_181.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_9.n_181.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_10.n_288.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_10.n_288.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_11.n_249.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_11.n_249.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_12.n_228.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_12.n_228.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_13.n_114.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_13.n_114.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_14.n_94.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_14.n_94.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_15.n_40.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_15.n_40.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_16.n_38.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_16.n_38.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_1.n_2712.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_1.n_2712.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_2.n_2270.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_2.n_2270.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_3.n_693.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_3.n_693.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_4.n_640.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_4.n_640.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_5.n_611.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_5.n_611.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_6.n_415.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_6.n_415.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_7.n_396.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_7.n_396.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_8.n_366.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_8.n_366.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_9.n_342.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_9.n_342.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_0.n_15446.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_0.n_15446.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_10.n_198.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_10.n_198.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_11.n_163.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_11.n_163.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_12.n_162.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_12.n_162.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_13.n_130.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_13.n_130.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_14.n_92.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_14.n_92.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_15.n_32.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_15.n_32.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_16.n_30.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_16.n_30.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_17.n_20.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_17.n_20.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_1.n_1113.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_1.n_1113.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_2.n_501.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_2.n_501.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_3.n_360.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_3.n_360.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_4.n_297.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_4.n_297.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_5.n_294.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_5.n_294.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_6.n_292.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_6.n_292.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_7.n_275.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_7.n_275.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_8.n_235.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_8.n_235.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_9.n_227.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_9.n_227.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_0.n_12661.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_0.n_12661.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_10.n_50.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_10.n_50.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_11.n_50.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_11.n_50.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_12.n_40.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_12.n_40.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_13.n_39.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_13.n_39.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_14.n_32.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_14.n_32.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_15.n_29.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_15.n_29.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_16.n_20.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_16.n_20.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_1.n_404.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_1.n_404.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_2.n_336.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_2.n_336.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_3.n_221.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_3.n_221.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_4.n_220.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_4.n_220.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_5.n_197.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_5.n_197.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_6.n_187.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_6.n_187.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_7.n_101.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_7.n_101.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_8.n_100.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_8.n_100.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_9.n_54.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_9.n_54.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_0.n_7900.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_0.n_7900.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_10.n_100.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_10.n_100.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_11.n_97.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_11.n_97.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_12.n_96.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_12.n_96.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_13.n_88.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_13.n_88.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_14.n_88.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_14.n_88.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_15.n_86.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_15.n_86.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_16.n_73.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_16.n_73.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_17.n_53.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_17.n_53.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_18.n_52.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_18.n_52.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_1.n_1762.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_1.n_1762.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_2.n_314.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_2.n_314.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_3.n_279.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_3.n_279.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_4.n_256.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_4.n_256.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_5.n_248.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_5.n_248.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_6.n_206.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_6.n_206.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_7.n_183.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_7.n_183.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_8.n_137.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_8.n_137.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_9.n_127.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_9.n_127.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL3-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_0.n_2058.PWM.meme motif-alignments-all-vs-all/OVOL3/OVOL3-202-vs-OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_0.n_2058.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL3-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_1.n_1860.PWM.meme motif-alignments-all-vs-all/OVOL3/OVOL3-202-vs-OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_1.n_1860.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL3-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_2.n_749.PWM.meme motif-alignments-all-vs-all/OVOL3/OVOL3-202-vs-OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_2.n_749.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL3-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_3.n_535.PWM.meme motif-alignments-all-vs-all/OVOL3/OVOL3-202-vs-OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_3.n_535.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL3-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_4.n_344.PWM.meme motif-alignments-all-vs-all/OVOL3/OVOL3-202-vs-OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_4.n_344.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL3-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_5.n_202.PWM.meme motif-alignments-all-vs-all/OVOL3/OVOL3-202-vs-OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_5.n_202.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL3-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_6.n_137.PWM.meme motif-alignments-all-vs-all/OVOL3/OVOL3-202-vs-OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_6.n_137.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL3-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_7.n_63.PWM.meme motif-alignments-all-vs-all/OVOL3/OVOL3-202-vs-OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_7.n_63.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_10.n_303.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_10.n_303.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_11.n_226.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_11.n_226.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_12.n_180.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_12.n_180.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_13.n_80.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_13.n_80.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_14.n_49.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_14.n_49.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_15.n_46.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_15.n_46.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_16.n_39.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_16.n_39.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_1.n_3414.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_1.n_3414.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_2.n_3287.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_2.n_3287.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_3.n_3270.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_3.n_3270.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_4.n_1453.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_4.n_1453.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_5.n_1223.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_5.n_1223.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_6.n_1128.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_6.n_1128.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_7.n_612.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_7.n_612.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_8.n_512.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_8.n_512.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_9.n_347.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_9.n_347.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/AEBP2-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_0.n_1401.PWM.meme motif-alignments-all-vs-all/AEBP2/AEBP2-202-vs-AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_0.n_1401.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/AEBP2-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_1.n_191.PWM.meme motif-alignments-all-vs-all/AEBP2/AEBP2-202-vs-AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_1.n_191.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/AEBP2-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_2.n_61.PWM.meme motif-alignments-all-vs-all/AEBP2/AEBP2-202-vs-AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_2.n_61.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/AEBP2-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_3.n_61.PWM.meme motif-alignments-all-vs-all/AEBP2/AEBP2-202-vs-AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_3.n_61.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/AEBP2-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_4.n_46.PWM.meme motif-alignments-all-vs-all/AEBP2/AEBP2-202-vs-AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_4.n_46.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/AEBP2-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_5.n_45.PWM.meme motif-alignments-all-vs-all/AEBP2/AEBP2-202-vs-AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_5.n_45.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/AEBP2-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_6.n_35.PWM.meme motif-alignments-all-vs-all/AEBP2/AEBP2-202-vs-AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_6.n_35.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/AEBP2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_2.n_61.PWM.meme motif-alignments-all-vs-all/AEBP2/AEBP2-204-vs-AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_2.n_61.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/AEBP2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_3.n_61.PWM.meme motif-alignments-all-vs-all/AEBP2/AEBP2-204-vs-AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_3.n_61.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/AEBP2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_5.n_45.PWM.meme motif-alignments-all-vs-all/AEBP2/AEBP2-204-vs-AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_5.n_45.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_15.n_72.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_15.n_72.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_16.n_33.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_16.n_33.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_17.n_33.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_17.n_33.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_18.n_29.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_18.n_29.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_1.n_3392.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_1.n_3392.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_2.n_2470.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_2.n_2470.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_3.n_1155.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_3.n_1155.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_4.n_838.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_4.n_838.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_5.n_752.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_5.n_752.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_6.n_658.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_6.n_658.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_7.n_564.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_7.n_564.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_8.n_295.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_8.n_295.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_9.n_231.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_9.n_231.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_0.n_1217.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_0.n_1217.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_10.n_83.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_10.n_83.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_11.n_36.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_11.n_36.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_12.n_32.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_12.n_32.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_1.n_1000.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_1.n_1000.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_2.n_434.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_2.n_434.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_3.n_428.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_3.n_428.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_4.n_371.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_4.n_371.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_5.n_331.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_5.n_331.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_6.n_150.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_6.n_150.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_7.n_121.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_7.n_121.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_8.n_109.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_8.n_109.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_9.n_91.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_9.n_91.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_0.n_3527.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_0.n_3527.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_10.n_189.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_10.n_189.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_11.n_187.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_11.n_187.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_12.n_183.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_12.n_183.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_13.n_174.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_13.n_174.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_14.n_112.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_14.n_112.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_15.n_72.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_15.n_72.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_16.n_33.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_16.n_33.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_17.n_33.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_17.n_33.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_18.n_29.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_18.n_29.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_1.n_3392.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_1.n_3392.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_2.n_2470.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_2.n_2470.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_3.n_1155.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_3.n_1155.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_4.n_838.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_4.n_838.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_5.n_752.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_5.n_752.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_6.n_658.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_6.n_658.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_7.n_564.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_7.n_564.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_8.n_295.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_8.n_295.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_9.n_231.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_9.n_231.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_0.n_1217.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_0.n_1217.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_10.n_83.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_10.n_83.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_11.n_36.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_11.n_36.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_12.n_32.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_12.n_32.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_1.n_1000.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_1.n_1000.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_2.n_434.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_2.n_434.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_3.n_428.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_3.n_428.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_4.n_371.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_4.n_371.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_5.n_331.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_5.n_331.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_6.n_150.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_6.n_150.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_7.n_121.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_7.n_121.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_8.n_109.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_8.n_109.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_9.n_91.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_9.n_91.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_0.n_3527.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_0.n_3527.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_10.n_189.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_10.n_189.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_11.n_187.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_11.n_187.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_12.n_183.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_12.n_183.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_13.n_174.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_13.n_174.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_14.n_112.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_14.n_112.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_15.n_72.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_15.n_72.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_16.n_33.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_16.n_33.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_17.n_33.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_17.n_33.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_18.n_29.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_18.n_29.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_1.n_3392.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_1.n_3392.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_2.n_2470.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_2.n_2470.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_3.n_1155.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_3.n_1155.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_4.n_838.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_4.n_838.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_5.n_752.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_5.n_752.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_6.n_658.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_6.n_658.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_7.n_564.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_7.n_564.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_8.n_295.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_8.n_295.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_9.n_231.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_9.n_231.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_0.n_1217.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_0.n_1217.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_10.n_83.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_10.n_83.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_11.n_36.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_11.n_36.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_12.n_32.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_12.n_32.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_1.n_1000.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_1.n_1000.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_2.n_434.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_2.n_434.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_3.n_428.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_3.n_428.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_4.n_371.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_4.n_371.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_5.n_331.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_5.n_331.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_6.n_150.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_6.n_150.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_7.n_121.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_7.n_121.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_8.n_109.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_8.n_109.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_9.n_91.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_9.n_91.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_0.n_3527.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_0.n_3527.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_10.n_189.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_10.n_189.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_11.n_187.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_11.n_187.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_12.n_183.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_12.n_183.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_13.n_174.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_13.n_174.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_14.n_112.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_14.n_112.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_15.n_72.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_15.n_72.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_16.n_33.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_16.n_33.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_17.n_33.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_17.n_33.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_18.n_29.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_18.n_29.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_1.n_3392.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_1.n_3392.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_2.n_2470.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_2.n_2470.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_3.n_1155.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_3.n_1155.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_4.n_838.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_4.n_838.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_5.n_752.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_5.n_752.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_6.n_658.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_6.n_658.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_7.n_564.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_7.n_564.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_8.n_295.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_8.n_295.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_9.n_231.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_9.n_231.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_0.n_1217.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_0.n_1217.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_10.n_83.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_10.n_83.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_11.n_36.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_11.n_36.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_12.n_32.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_12.n_32.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_1.n_1000.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_1.n_1000.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_2.n_434.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_2.n_434.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_3.n_428.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_3.n_428.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_4.n_371.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_4.n_371.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_5.n_331.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_5.n_331.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_6.n_150.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_6.n_150.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_7.n_121.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_7.n_121.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_8.n_109.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_8.n_109.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_9.n_91.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_9.n_91.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_12.n_278.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_12.n_278.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_14.n_136.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_14.n_136.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_1.n_335.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_1.n_335.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_12.n_278.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_12.n_278.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_14.n_136.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_14.n_136.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_1.n_335.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_1.n_335.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_12.n_278.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_12.n_278.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_14.n_136.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_14.n_136.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_1.n_335.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_1.n_335.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_12.n_278.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_12.n_278.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_14.n_136.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_14.n_136.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_1.n_335.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_1.n_335.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_12.n_278.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_12.n_278.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_14.n_136.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_14.n_136.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_1.n_335.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_1.n_335.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_12.n_278.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_12.n_278.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_14.n_136.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_14.n_136.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_1.n_335.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_1.n_335.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_0.n_8199.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_0.n_8199.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_10.n_324.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_10.n_324.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_11.n_286.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_11.n_286.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_12.n_223.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_12.n_223.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_13.n_218.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_13.n_218.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_14.n_212.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_14.n_212.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_15.n_193.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_15.n_193.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_16.n_117.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_16.n_117.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_17.n_68.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_17.n_68.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_18.n_51.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_18.n_51.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_19.n_50.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_19.n_50.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_1.n_5691.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_1.n_5691.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_20.n_44.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_20.n_44.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_21.n_35.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_21.n_35.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_22.n_32.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_22.n_32.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_23.n_26.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_23.n_26.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_24.n_21.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_24.n_21.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_2.n_5459.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_2.n_5459.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_3.n_4524.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_3.n_4524.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_4.n_4169.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_4.n_4169.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_5.n_3056.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_5.n_3056.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_6.n_762.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_6.n_762.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_7.n_644.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_7.n_644.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_8.n_475.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_8.n_475.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_9.n_457.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_9.n_457.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_0.n_7444.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_0.n_7444.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_10.n_494.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_10.n_494.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_11.n_480.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_11.n_480.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_12.n_323.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_12.n_323.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_13.n_254.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_13.n_254.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_14.n_158.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_14.n_158.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_15.n_116.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_15.n_116.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_16.n_96.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_16.n_96.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_17.n_71.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_17.n_71.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_18.n_70.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_18.n_70.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_19.n_62.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_19.n_62.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_1.n_5084.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_1.n_5084.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_20.n_57.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_20.n_57.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_21.n_48.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_21.n_48.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_22.n_24.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_22.n_24.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_23.n_23.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_23.n_23.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_2.n_5078.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_2.n_5078.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_3.n_4167.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_3.n_4167.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_4.n_4057.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_4.n_4057.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_5.n_2801.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_5.n_2801.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_6.n_1068.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_6.n_1068.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_7.n_753.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_7.n_753.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_8.n_689.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_8.n_689.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_9.n_652.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_9.n_652.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_0.n_8199.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_0.n_8199.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_10.n_324.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_10.n_324.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_11.n_286.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_11.n_286.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_12.n_223.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_12.n_223.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_13.n_218.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_13.n_218.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_14.n_212.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_14.n_212.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_15.n_193.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_15.n_193.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_16.n_117.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_16.n_117.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_17.n_68.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_17.n_68.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_18.n_51.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_18.n_51.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_19.n_50.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_19.n_50.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_1.n_5691.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_1.n_5691.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_20.n_44.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_20.n_44.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_21.n_35.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_21.n_35.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_22.n_32.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_22.n_32.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_23.n_26.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_23.n_26.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_24.n_21.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_24.n_21.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_2.n_5459.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_2.n_5459.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_3.n_4524.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_3.n_4524.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_4.n_4169.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_4.n_4169.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_5.n_3056.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_5.n_3056.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_6.n_762.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_6.n_762.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_7.n_644.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_7.n_644.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_8.n_475.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_8.n_475.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_9.n_457.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_9.n_457.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_0.n_7444.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_0.n_7444.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_10.n_494.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_10.n_494.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_11.n_480.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_11.n_480.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_12.n_323.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_12.n_323.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_13.n_254.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_13.n_254.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_14.n_158.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_14.n_158.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_15.n_116.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_15.n_116.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_16.n_96.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_16.n_96.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_17.n_71.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_17.n_71.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_18.n_70.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_18.n_70.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_19.n_62.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_19.n_62.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_1.n_5084.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_1.n_5084.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_20.n_57.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_20.n_57.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_21.n_48.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_21.n_48.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_22.n_24.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_22.n_24.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_23.n_23.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_23.n_23.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_2.n_5078.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_2.n_5078.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_3.n_4167.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_3.n_4167.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_4.n_4057.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_4.n_4057.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_5.n_2801.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_5.n_2801.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_6.n_1068.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_6.n_1068.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_7.n_753.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_7.n_753.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_8.n_689.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_8.n_689.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_9.n_652.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_9.n_652.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_0.n_8199.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_0.n_8199.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_10.n_324.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_10.n_324.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_11.n_286.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_11.n_286.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_12.n_223.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_12.n_223.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_13.n_218.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_13.n_218.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_14.n_212.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_14.n_212.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_15.n_193.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_15.n_193.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_16.n_117.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_16.n_117.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_17.n_68.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_17.n_68.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_18.n_51.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_18.n_51.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_19.n_50.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_19.n_50.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_1.n_5691.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_1.n_5691.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_20.n_44.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_20.n_44.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_21.n_35.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_21.n_35.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_22.n_32.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_22.n_32.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_23.n_26.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_23.n_26.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_24.n_21.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_24.n_21.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_2.n_5459.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_2.n_5459.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_3.n_4524.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_3.n_4524.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_4.n_4169.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_4.n_4169.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_5.n_3056.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_5.n_3056.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_6.n_762.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_6.n_762.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_7.n_644.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_7.n_644.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_8.n_475.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_8.n_475.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_9.n_457.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_9.n_457.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_0.n_7444.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_0.n_7444.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_10.n_494.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_10.n_494.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_11.n_480.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_11.n_480.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_12.n_323.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_12.n_323.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_13.n_254.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_13.n_254.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_14.n_158.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_14.n_158.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_15.n_116.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_15.n_116.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_16.n_96.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_16.n_96.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_17.n_71.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_17.n_71.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_18.n_70.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_18.n_70.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_19.n_62.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_19.n_62.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_1.n_5084.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_1.n_5084.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_20.n_57.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_20.n_57.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_21.n_48.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_21.n_48.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_22.n_24.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_22.n_24.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_23.n_23.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_23.n_23.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_2.n_5078.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_2.n_5078.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_3.n_4167.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_3.n_4167.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_4.n_4057.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_4.n_4057.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_5.n_2801.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_5.n_2801.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_6.n_1068.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_6.n_1068.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_7.n_753.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_7.n_753.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_8.n_689.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_8.n_689.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_9.n_652.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_9.n_652.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_0.n_8199.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_0.n_8199.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_10.n_324.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_10.n_324.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_11.n_286.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_11.n_286.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_12.n_223.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_12.n_223.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_13.n_218.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_13.n_218.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_14.n_212.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_14.n_212.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_15.n_193.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_15.n_193.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_16.n_117.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_16.n_117.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_17.n_68.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_17.n_68.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_18.n_51.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_18.n_51.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_19.n_50.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_19.n_50.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_1.n_5691.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_1.n_5691.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_20.n_44.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_20.n_44.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_21.n_35.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_21.n_35.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_22.n_32.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_22.n_32.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_23.n_26.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_23.n_26.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_24.n_21.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_24.n_21.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_2.n_5459.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_2.n_5459.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_3.n_4524.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_3.n_4524.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_4.n_4169.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_4.n_4169.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_5.n_3056.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_5.n_3056.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_6.n_762.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_6.n_762.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_7.n_644.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_7.n_644.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_8.n_475.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_8.n_475.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_9.n_457.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_9.n_457.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_0.n_7444.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_0.n_7444.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_10.n_494.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_10.n_494.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_11.n_480.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_11.n_480.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_12.n_323.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_12.n_323.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_13.n_254.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_13.n_254.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_14.n_158.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_14.n_158.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_15.n_116.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_15.n_116.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_16.n_96.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_16.n_96.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_17.n_71.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_17.n_71.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_18.n_70.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_18.n_70.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_19.n_62.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_19.n_62.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_1.n_5084.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_1.n_5084.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_20.n_57.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_20.n_57.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_21.n_48.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_21.n_48.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_22.n_24.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_22.n_24.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_23.n_23.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_23.n_23.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_2.n_5078.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_2.n_5078.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_3.n_4167.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_3.n_4167.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_4.n_4057.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_4.n_4057.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_5.n_2801.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_5.n_2801.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_6.n_1068.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_6.n_1068.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_7.n_753.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_7.n_753.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_8.n_689.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_8.n_689.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_9.n_652.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_9.n_652.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_0.n_665.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_0.n_665.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_10.n_104.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_10.n_104.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_11.n_95.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_11.n_95.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_12.n_83.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_12.n_83.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_13.n_80.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_13.n_80.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_14.n_78.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_14.n_78.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_15.n_74.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_15.n_74.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_16.n_70.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_16.n_70.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_17.n_64.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_17.n_64.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_18.n_58.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_18.n_58.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_19.n_49.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_19.n_49.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_1.n_367.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_1.n_367.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_20.n_48.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_20.n_48.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_21.n_45.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_21.n_45.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_22.n_44.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_22.n_44.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_23.n_40.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_23.n_40.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_24.n_37.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_24.n_37.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_25.n_31.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_25.n_31.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_26.n_27.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_26.n_27.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_2.n_237.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_2.n_237.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_3.n_235.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_3.n_235.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_4.n_230.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_4.n_230.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_5.n_145.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_5.n_145.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_6.n_142.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_6.n_142.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_7.n_140.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_7.n_140.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_8.n_132.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_8.n_132.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_9.n_131.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_9.n_131.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_0.n_4621.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_0.n_4621.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_1.n_1496.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_1.n_1496.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_2.n_520.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_2.n_520.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_3.n_279.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_3.n_279.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_4.n_199.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_4.n_199.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_5.n_191.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_5.n_191.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_6.n_64.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_6.n_64.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_7.n_54.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_7.n_54.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_8.n_32.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_8.n_32.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_9.n_21.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_9.n_21.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_0.n_665.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_0.n_665.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_10.n_104.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_10.n_104.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_11.n_95.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_11.n_95.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_12.n_83.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_12.n_83.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_13.n_80.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_13.n_80.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_14.n_78.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_14.n_78.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_15.n_74.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_15.n_74.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_16.n_70.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_16.n_70.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_17.n_64.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_17.n_64.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_18.n_58.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_18.n_58.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_23.n_40.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_23.n_40.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_24.n_37.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_24.n_37.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_25.n_31.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_25.n_31.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_26.n_27.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_26.n_27.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_2.n_237.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_2.n_237.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_3.n_235.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_3.n_235.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_4.n_230.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_4.n_230.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_5.n_145.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_5.n_145.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_6.n_142.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_6.n_142.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_7.n_140.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_7.n_140.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_8.n_132.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_8.n_132.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_9.n_131.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_9.n_131.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_0.n_4621.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_0.n_4621.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_1.n_1496.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_1.n_1496.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_2.n_520.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_2.n_520.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_3.n_279.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_3.n_279.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_4.n_199.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_4.n_199.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_5.n_191.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_5.n_191.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_6.n_64.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_6.n_64.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_7.n_54.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_7.n_54.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_8.n_32.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_8.n_32.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_9.n_21.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_9.n_21.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_0.n_8980.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_0.n_8980.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_10.n_46.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_10.n_46.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_1.n_7835.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_1.n_7835.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_4.n_331.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_4.n_331.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_5.n_307.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_5.n_307.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_6.n_143.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_6.n_143.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_7.n_113.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_7.n_113.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_8.n_91.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_8.n_91.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_3.n_102.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_3.n_102.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_8.n_66.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_8.n_66.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_1.n_7835.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_1.n_7835.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_4.n_501.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-201-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_4.n_501.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_5.n_372.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-201-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_5.n_372.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_6.n_291.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-201-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_6.n_291.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_7.n_285.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-201-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_7.n_285.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_8.n_213.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-201-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_8.n_213.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_9.n_94.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-201-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_9.n_94.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_0.n_6045.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_0.n_6045.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_10.n_92.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_10.n_92.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_11.n_59.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_11.n_59.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_1.n_1064.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_1.n_1064.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_2.n_523.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_2.n_523.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_3.n_518.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_3.n_518.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_4.n_501.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_4.n_501.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_5.n_372.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_5.n_372.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_6.n_291.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_6.n_291.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_7.n_285.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_7.n_285.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_8.n_213.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_8.n_213.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_9.n_94.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_9.n_94.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_0.n_6045.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_0.n_6045.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_10.n_92.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_10.n_92.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_11.n_59.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_11.n_59.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_1.n_1064.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_1.n_1064.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_2.n_523.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_2.n_523.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_3.n_518.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_3.n_518.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_4.n_501.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_4.n_501.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_5.n_372.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_5.n_372.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_6.n_291.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_6.n_291.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_7.n_285.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_7.n_285.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_8.n_213.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_8.n_213.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_9.n_94.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_9.n_94.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_0.n_5014.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_0.n_5014.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_10.n_248.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_10.n_248.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_11.n_246.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_11.n_246.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_11.n_113.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_11.n_113.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_12.n_112.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_12.n_112.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_13.n_108.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_13.n_108.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_14.n_79.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_14.n_79.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_15.n_77.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_15.n_77.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_16.n_62.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_16.n_62.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_17.n_60.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_17.n_60.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_18.n_42.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_18.n_42.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_19.n_37.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_19.n_37.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_1.n_357.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_1.n_357.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_20.n_32.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_20.n_32.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_21.n_21.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_21.n_21.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_2.n_325.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_2.n_325.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_3.n_291.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_3.n_291.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_4.n_255.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_4.n_255.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_5.n_202.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_5.n_202.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_6.n_166.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_6.n_166.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_7.n_150.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_7.n_150.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_8.n_130.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_8.n_130.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_9.n_117.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_9.n_117.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-201-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-201-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-201-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-203-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-203-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-203-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-206-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-206-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-206-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-220/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-220-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-220/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-220-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-220/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-220-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-221/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-221-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-221/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-221-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-221/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-221-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-208-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-208-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-210-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_11.n_257.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_11.n_257.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_12.n_72.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_12.n_72.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_13.n_32.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_13.n_32.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_14.n_31.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_14.n_31.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_1.n_1359.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_1.n_1359.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_2.n_1270.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_2.n_1270.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_3.n_1015.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_3.n_1015.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_4.n_847.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_4.n_847.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_5.n_651.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_5.n_651.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_6.n_562.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_6.n_562.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_7.n_537.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_7.n_537.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_8.n_489.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_8.n_489.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_9.n_373.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_9.n_373.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_0.n_1660.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_0.n_1660.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_10.n_35.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_10.n_35.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_11.n_32.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_11.n_32.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_1.n_584.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_1.n_584.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_2.n_245.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_2.n_245.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_3.n_188.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_3.n_188.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_4.n_162.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_4.n_162.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_5.n_126.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_5.n_126.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_6.n_120.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_6.n_120.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_7.n_107.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_7.n_107.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_8.n_66.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_8.n_66.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_9.n_38.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_9.n_38.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_0.n_1856.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_0.n_1856.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_10.n_267.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_10.n_267.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_11.n_257.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_11.n_257.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_12.n_72.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_12.n_72.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_13.n_32.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_13.n_32.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_14.n_31.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_14.n_31.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_1.n_1359.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_1.n_1359.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_2.n_1270.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_2.n_1270.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_3.n_1015.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_3.n_1015.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_4.n_847.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_4.n_847.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_5.n_651.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_5.n_651.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_6.n_562.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_6.n_562.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_7.n_537.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_7.n_537.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_8.n_489.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_8.n_489.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_9.n_373.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_9.n_373.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_0.n_1660.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_0.n_1660.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_10.n_35.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_10.n_35.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_11.n_32.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_11.n_32.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_1.n_584.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_1.n_584.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_2.n_245.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_2.n_245.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_3.n_188.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_3.n_188.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_4.n_162.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_4.n_162.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_5.n_126.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_5.n_126.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_6.n_120.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_6.n_120.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_7.n_107.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_7.n_107.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_8.n_66.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_8.n_66.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_9.n_38.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_9.n_38.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_0.n_6539.PWM.meme motif-alignments-all-vs-all/KLF4/KLF4-201-vs-KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_0.n_6539.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_1.n_737.PWM.meme motif-alignments-all-vs-all/KLF4/KLF4-201-vs-KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_1.n_737.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_2.n_520.PWM.meme motif-alignments-all-vs-all/KLF4/KLF4-201-vs-KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_2.n_520.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_3.n_512.PWM.meme motif-alignments-all-vs-all/KLF4/KLF4-201-vs-KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_3.n_512.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_4.n_250.PWM.meme motif-alignments-all-vs-all/KLF4/KLF4-201-vs-KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_4.n_250.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_5.n_99.PWM.meme motif-alignments-all-vs-all/KLF4/KLF4-201-vs-KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_5.n_99.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_6.n_68.PWM.meme motif-alignments-all-vs-all/KLF4/KLF4-201-vs-KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_6.n_68.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_7.n_21.PWM.meme motif-alignments-all-vs-all/KLF4/KLF4-201-vs-KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_7.n_21.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_0.n_961.PWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_0.n_961.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_10.n_77.PWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_10.n_77.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_11.n_37.PWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_11.n_37.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_12.n_21.PWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_12.n_21.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_1.n_358.PWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_1.n_358.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_2.n_327.PWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_2.n_327.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_3.n_239.PWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_3.n_239.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_4.n_210.PWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_4.n_210.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_5.n_185.PWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_5.n_185.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_6.n_169.PWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_6.n_169.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_7.n_168.PWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_7.n_168.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_8.n_163.PWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_8.n_163.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_9.n_98.PWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_9.n_98.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_0.n_525.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_0.n_525.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_1.n_380.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_1.n_380.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_2.n_172.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_2.n_172.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_3.n_170.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_3.n_170.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_4.n_165.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_4.n_165.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_5.n_131.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_5.n_131.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_6.n_35.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_6.n_35.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_7.n_26.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_7.n_26.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_0.n_3740.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_0.n_3740.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_10.n_234.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_10.n_234.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_11.n_186.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_11.n_186.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_12.n_182.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_12.n_182.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_13.n_105.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_13.n_105.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_14.n_83.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_14.n_83.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_15.n_47.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_15.n_47.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_16.n_37.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_16.n_37.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_17.n_29.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_17.n_29.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_18.n_27.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_18.n_27.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_1.n_3350.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_1.n_3350.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_2.n_2850.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_2.n_2850.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_3.n_1994.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_3.n_1994.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_4.n_622.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_4.n_622.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_5.n_620.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_5.n_620.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_6.n_387.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_6.n_387.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_7.n_307.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_7.n_307.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_8.n_294.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_8.n_294.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_9.n_255.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_9.n_255.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_1.n_744.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_1.n_744.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_9.n_240.PWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_9.n_240.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_16.n_48.PWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_16.n_48.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TSHZ1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TSHZ1-HEK293-ENCSR958JPH.bestfold.profile.pattern_5.n_175.PWM.meme motif-alignments-all-vs-all/TSHZ1/TSHZ1-201-vs-TSHZ1-HEK293-ENCSR958JPH.bestfold.profile.pattern_5.n_175.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TSHZ1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TSHZ1-HEK293-ENCSR958JPH.bestfold.profile.pattern_6.n_110.PWM.meme motif-alignments-all-vs-all/TSHZ1/TSHZ1-201-vs-TSHZ1-HEK293-ENCSR958JPH.bestfold.profile.pattern_6.n_110.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TSHZ1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TSHZ1-HEK293-ENCSR958JPH.bestfold.profile.pattern_7.n_83.PWM.meme motif-alignments-all-vs-all/TSHZ1/TSHZ1-201-vs-TSHZ1-HEK293-ENCSR958JPH.bestfold.profile.pattern_7.n_83.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TSHZ1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TSHZ1-K562-ENCSR958JPH.bestfold.profile.pattern_4.n_256.PWM.meme motif-alignments-all-vs-all/TSHZ1/TSHZ1-201-vs-TSHZ1-K562-ENCSR958JPH.bestfold.profile.pattern_4.n_256.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TSHZ1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TSHZ1-K562-ENCSR958JPH.bestfold.profile.pattern_5.n_175.PWM.meme motif-alignments-all-vs-all/TSHZ1/TSHZ1-201-vs-TSHZ1-K562-ENCSR958JPH.bestfold.profile.pattern_5.n_175.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TSHZ1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TSHZ1-K562-ENCSR958JPH.bestfold.profile.pattern_6.n_110.PWM.meme motif-alignments-all-vs-all/TSHZ1/TSHZ1-201-vs-TSHZ1-K562-ENCSR958JPH.bestfold.profile.pattern_6.n_110.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_16.n_36.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_16.n_36.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_17.n_31.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_17.n_31.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_18.n_30.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_18.n_30.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_19.n_26.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_19.n_26.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_1.n_1102.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_1.n_1102.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_20.n_21.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_20.n_21.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_2.n_845.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_2.n_845.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_3.n_838.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_3.n_838.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_4.n_548.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_4.n_548.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_5.n_525.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_5.n_525.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_6.n_512.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_6.n_512.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_7.n_473.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_7.n_473.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_8.n_341.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_8.n_341.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_9.n_298.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_9.n_298.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_11.n_24.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_11.n_24.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_12.n_22.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_12.n_22.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_8.n_58.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_8.n_58.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_9.n_56.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_9.n_56.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_6.n_388.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_6.n_388.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_7.n_286.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_7.n_286.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_8.n_203.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_8.n_203.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_9.n_120.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_9.n_120.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_0.n_11128.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_0.n_11128.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_10.n_434.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_10.n_434.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_11.n_433.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_11.n_433.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_12.n_413.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_12.n_413.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_13.n_326.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_13.n_326.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_14.n_261.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_14.n_261.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_15.n_201.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_15.n_201.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_16.n_45.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_16.n_45.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_17.n_29.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_17.n_29.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_18.n_24.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_18.n_24.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_1.n_1450.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_1.n_1450.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_3.n_913.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_3.n_913.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_4.n_870.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_4.n_870.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_5.n_706.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_5.n_706.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_6.n_672.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_6.n_672.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_8.n_637.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_8.n_637.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_11.n_433.PWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_11.n_433.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_5.n_706.PWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_5.n_706.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_6.n_672.PWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_6.n_672.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_7.n_666.PWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_7.n_666.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_8.n_637.PWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_8.n_637.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_9.n_442.PWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_9.n_442.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_0.n_9417.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_0.n_9417.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_10.n_289.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_10.n_289.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_11.n_187.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_11.n_187.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_12.n_150.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_12.n_150.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_13.n_146.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_13.n_146.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_14.n_138.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_14.n_138.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_15.n_60.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_15.n_60.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_16.n_26.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_16.n_26.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_17.n_23.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_17.n_23.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_1.n_2222.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_1.n_2222.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_2.n_1768.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_2.n_1768.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_3.n_1325.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_3.n_1325.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_4.n_1184.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_4.n_1184.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_5.n_984.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_5.n_984.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_6.n_618.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_6.n_618.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_7.n_601.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_7.n_601.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_8.n_473.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_8.n_473.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_9.n_392.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_9.n_392.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_0.n_10172.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_0.n_10172.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_10.n_63.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_10.n_63.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_11.n_55.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_11.n_55.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_12.n_39.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_12.n_39.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_1.n_5365.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_1.n_5365.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_2.n_4138.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_2.n_4138.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_3.n_2645.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_3.n_2645.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_4.n_2412.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_4.n_2412.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_5.n_1898.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_5.n_1898.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_6.n_1717.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_6.n_1717.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_7.n_1432.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_7.n_1432.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_8.n_917.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_8.n_917.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_9.n_127.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_9.n_127.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_10.n_63.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_10.n_63.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_11.n_55.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_11.n_55.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_12.n_39.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_12.n_39.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_1.n_5365.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_1.n_5365.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_2.n_4138.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_2.n_4138.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_3.n_2645.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_3.n_2645.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_4.n_2412.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_4.n_2412.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_5.n_1898.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_5.n_1898.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_6.n_1717.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_6.n_1717.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_7.n_1432.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_7.n_1432.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_8.n_917.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_8.n_917.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_9.n_127.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_9.n_127.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_0.n_1536.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_0.n_1536.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_10.n_43.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_10.n_43.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_11.n_22.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_11.n_22.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_1.n_720.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_1.n_720.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_2.n_260.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_2.n_260.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_3.n_188.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_3.n_188.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_4.n_122.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_4.n_122.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_5.n_119.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_5.n_119.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_6.n_90.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_6.n_90.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_7.n_85.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_7.n_85.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_8.n_65.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_8.n_65.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_9.n_56.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_9.n_56.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_0.n_982.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_0.n_982.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_10.n_49.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_10.n_49.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_11.n_46.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_11.n_46.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_12.n_45.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_12.n_45.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_13.n_43.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_13.n_43.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_14.n_32.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_14.n_32.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_15.n_22.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_15.n_22.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_1.n_127.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_1.n_127.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_2.n_113.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_2.n_113.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_3.n_100.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_3.n_100.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_4.n_97.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_4.n_97.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_5.n_95.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_5.n_95.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_6.n_81.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_6.n_81.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_7.n_78.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_7.n_78.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_8.n_74.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_8.n_74.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_9.n_59.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_9.n_59.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_0.n_11533.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_0.n_11533.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_10.n_457.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_10.n_457.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_11.n_314.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_11.n_314.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_12.n_272.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_12.n_272.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_13.n_269.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_13.n_269.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_14.n_228.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_14.n_228.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_15.n_224.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_15.n_224.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_16.n_208.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_16.n_208.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_17.n_162.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_17.n_162.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_18.n_128.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_18.n_128.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_19.n_117.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_19.n_117.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_1.n_3137.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_1.n_3137.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_20.n_114.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_20.n_114.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_21.n_113.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_21.n_113.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_22.n_105.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_22.n_105.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_23.n_93.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_23.n_93.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_24.n_90.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_24.n_90.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_25.n_62.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_25.n_62.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_26.n_55.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_26.n_55.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_27.n_53.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_27.n_53.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_28.n_47.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_28.n_47.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_29.n_46.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_29.n_46.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_2.n_3053.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_2.n_3053.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_30.n_44.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_30.n_44.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_31.n_36.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_31.n_36.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_32.n_34.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_32.n_34.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_33.n_32.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_33.n_32.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_34.n_20.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_34.n_20.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_35.n_20.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_35.n_20.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_3.n_1844.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_3.n_1844.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_4.n_1740.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_4.n_1740.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_5.n_1306.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_5.n_1306.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_6.n_734.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_6.n_734.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_7.n_653.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_7.n_653.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_8.n_497.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_8.n_497.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_9.n_461.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_9.n_461.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_0.n_876.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_0.n_876.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_10.n_24.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_10.n_24.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_11.n_21.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_11.n_21.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_1.n_166.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_1.n_166.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_2.n_94.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_2.n_94.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_3.n_59.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_3.n_59.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_4.n_51.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_4.n_51.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_5.n_48.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_5.n_48.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_6.n_46.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_6.n_46.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_7.n_43.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_7.n_43.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_8.n_37.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_8.n_37.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_9.n_37.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_9.n_37.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_0.n_1536.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_0.n_1536.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_10.n_43.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_10.n_43.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_11.n_22.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_11.n_22.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_1.n_720.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_1.n_720.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_2.n_260.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_2.n_260.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_3.n_188.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_3.n_188.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_4.n_122.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_4.n_122.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_5.n_119.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_5.n_119.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_6.n_90.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_6.n_90.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_7.n_85.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_7.n_85.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_8.n_65.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_8.n_65.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_9.n_56.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_9.n_56.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_0.n_982.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_0.n_982.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_10.n_49.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_10.n_49.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_11.n_46.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_11.n_46.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_12.n_45.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_12.n_45.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_13.n_43.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_13.n_43.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_14.n_32.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_14.n_32.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_15.n_22.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_15.n_22.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_1.n_127.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_1.n_127.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_2.n_113.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_2.n_113.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_3.n_100.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_3.n_100.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_4.n_97.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_4.n_97.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_5.n_95.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_5.n_95.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_6.n_81.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_6.n_81.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_7.n_78.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_7.n_78.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_8.n_74.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_8.n_74.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_9.n_59.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_9.n_59.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_0.n_11533.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_0.n_11533.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_10.n_457.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_10.n_457.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_11.n_314.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_11.n_314.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_12.n_272.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_12.n_272.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_13.n_269.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_13.n_269.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_14.n_228.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_14.n_228.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_15.n_224.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_15.n_224.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_16.n_208.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_16.n_208.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_17.n_162.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_17.n_162.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_18.n_128.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_18.n_128.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_19.n_117.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_19.n_117.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_1.n_3137.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_1.n_3137.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_20.n_114.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_20.n_114.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_21.n_113.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_21.n_113.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_22.n_105.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_22.n_105.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_23.n_93.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_23.n_93.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_24.n_90.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_24.n_90.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_25.n_62.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_25.n_62.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_26.n_55.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_26.n_55.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_27.n_53.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_27.n_53.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_28.n_47.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_28.n_47.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_29.n_46.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_29.n_46.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_2.n_3053.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_2.n_3053.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_30.n_44.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_30.n_44.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_31.n_36.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_31.n_36.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_32.n_34.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_32.n_34.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_33.n_32.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_33.n_32.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_34.n_20.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_34.n_20.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_35.n_20.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_35.n_20.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_3.n_1844.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_3.n_1844.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_4.n_1740.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_4.n_1740.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_5.n_1306.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_5.n_1306.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_6.n_734.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_6.n_734.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_7.n_653.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_7.n_653.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_8.n_497.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_8.n_497.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_9.n_461.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_9.n_461.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_0.n_876.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_0.n_876.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_10.n_24.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_10.n_24.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_11.n_21.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_11.n_21.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_1.n_166.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_1.n_166.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_2.n_94.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_2.n_94.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_3.n_59.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_3.n_59.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_4.n_51.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_4.n_51.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_5.n_48.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_5.n_48.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_6.n_46.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_6.n_46.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_7.n_43.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_7.n_43.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_8.n_37.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_8.n_37.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_9.n_37.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_9.n_37.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_0.n_1536.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_0.n_1536.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_10.n_43.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_10.n_43.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_11.n_22.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_11.n_22.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_1.n_720.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_1.n_720.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_2.n_260.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_2.n_260.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_3.n_188.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_3.n_188.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_4.n_122.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_4.n_122.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_5.n_119.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_5.n_119.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_6.n_90.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_6.n_90.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_7.n_85.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_7.n_85.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_8.n_65.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_8.n_65.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_9.n_56.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_9.n_56.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_0.n_982.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_0.n_982.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_10.n_49.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_10.n_49.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_11.n_46.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_11.n_46.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_12.n_45.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_12.n_45.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_13.n_43.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_13.n_43.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_14.n_32.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_14.n_32.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_15.n_22.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_15.n_22.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_4.n_97.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_4.n_97.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_5.n_95.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_5.n_95.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_6.n_81.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_6.n_81.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_7.n_78.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_7.n_78.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_8.n_74.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_8.n_74.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_9.n_59.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_9.n_59.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_0.n_11533.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_0.n_11533.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_10.n_457.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_10.n_457.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_11.n_314.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_11.n_314.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_12.n_272.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_12.n_272.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_13.n_269.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_13.n_269.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_14.n_228.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_14.n_228.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_15.n_224.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_15.n_224.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_16.n_208.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_16.n_208.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_17.n_162.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_17.n_162.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_18.n_128.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_18.n_128.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_19.n_117.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_19.n_117.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_1.n_3137.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_1.n_3137.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_20.n_114.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_20.n_114.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_21.n_113.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_21.n_113.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_22.n_105.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_22.n_105.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_23.n_93.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_23.n_93.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_24.n_90.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_24.n_90.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_25.n_62.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_25.n_62.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_26.n_55.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_26.n_55.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_27.n_53.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_27.n_53.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_28.n_47.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_28.n_47.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_29.n_46.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_29.n_46.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_2.n_3053.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_2.n_3053.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_30.n_44.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_30.n_44.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_31.n_36.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_31.n_36.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_32.n_34.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_32.n_34.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_33.n_32.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_33.n_32.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_34.n_20.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_34.n_20.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_35.n_20.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_35.n_20.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_3.n_1844.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_3.n_1844.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_28.n_168.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_28.n_168.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_29.n_160.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_29.n_160.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_2.n_492.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_2.n_492.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_30.n_149.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_30.n_149.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_31.n_145.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_31.n_145.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_32.n_120.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_32.n_120.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_33.n_106.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_33.n_106.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_34.n_98.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_34.n_98.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_35.n_91.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_35.n_91.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_36.n_69.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_36.n_69.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_3.n_435.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_3.n_435.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_4.n_413.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_4.n_413.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_5.n_352.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_5.n_352.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_6.n_322.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_6.n_322.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_7.n_304.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_7.n_304.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_8.n_298.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_8.n_298.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_9.n_283.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_9.n_283.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_0.n_1451.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_0.n_1451.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_10.n_661.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_10.n_661.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_11.n_617.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_11.n_617.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_12.n_607.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_12.n_607.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_13.n_607.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_13.n_607.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_14.n_590.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_14.n_590.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_15.n_575.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_15.n_575.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_16.n_537.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_16.n_537.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_17.n_490.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_17.n_490.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_18.n_466.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_18.n_466.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_25.n_342.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_25.n_342.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_26.n_341.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_26.n_341.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_27.n_331.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_27.n_331.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_28.n_328.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_28.n_328.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_29.n_320.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_29.n_320.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_2.n_824.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_2.n_824.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_30.n_270.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_30.n_270.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_31.n_261.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_31.n_261.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_32.n_222.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_32.n_222.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_33.n_76.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_33.n_76.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_34.n_76.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_34.n_76.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_35.n_74.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_35.n_74.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_36.n_68.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_36.n_68.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_37.n_26.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_37.n_26.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_3.n_797.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_3.n_797.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_4.n_787.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_4.n_787.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_5.n_782.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_5.n_782.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_6.n_728.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_6.n_728.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_7.n_707.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_7.n_707.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_8.n_695.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_8.n_695.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_9.n_664.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_9.n_664.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_0.n_2782.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_0.n_2782.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_10.n_174.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_10.n_174.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_11.n_171.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_11.n_171.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_12.n_164.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_12.n_164.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_13.n_157.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_13.n_157.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_14.n_131.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_14.n_131.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_15.n_126.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_15.n_126.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_16.n_124.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_16.n_124.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_17.n_113.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_17.n_113.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_18.n_83.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_18.n_83.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_19.n_80.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_19.n_80.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_1.n_2492.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_1.n_2492.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_20.n_45.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_20.n_45.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_21.n_41.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_21.n_41.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_22.n_30.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_22.n_30.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_23.n_28.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_23.n_28.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_24.n_27.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_24.n_27.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_2.n_1716.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_2.n_1716.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_3.n_1235.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_3.n_1235.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_4.n_1139.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_4.n_1139.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_5.n_728.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_5.n_728.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_6.n_399.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_6.n_399.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_7.n_328.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_7.n_328.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_8.n_273.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_8.n_273.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_9.n_212.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_9.n_212.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_0.n_2510.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_0.n_2510.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_10.n_32.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_10.n_32.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_11.n_25.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_11.n_25.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_12.n_22.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_12.n_22.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_13.n_20.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_13.n_20.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_1.n_2293.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_1.n_2293.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_2.n_1090.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_2.n_1090.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_3.n_770.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_3.n_770.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_4.n_313.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_4.n_313.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_5.n_158.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_5.n_158.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_6.n_156.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_6.n_156.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_7.n_90.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_7.n_90.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_8.n_53.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_8.n_53.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_9.n_36.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_9.n_36.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_0.n_2816.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_0.n_2816.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_10.n_33.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_10.n_33.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_11.n_32.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_11.n_32.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_1.n_1772.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_1.n_1772.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_2.n_1422.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_2.n_1422.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_3.n_565.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_3.n_565.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_4.n_206.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_4.n_206.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_5.n_117.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_5.n_117.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_6.n_105.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_6.n_105.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_7.n_68.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_7.n_68.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_8.n_65.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_8.n_65.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_9.n_63.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_9.n_63.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_0.n_2450.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_0.n_2450.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_10.n_62.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_10.n_62.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_11.n_50.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_11.n_50.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_12.n_27.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_12.n_27.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_13.n_24.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_13.n_24.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_14.n_20.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_14.n_20.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_1.n_1269.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_1.n_1269.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_2.n_417.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_2.n_417.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_3.n_321.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_3.n_321.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_4.n_208.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_4.n_208.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_5.n_143.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_5.n_143.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_6.n_113.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_6.n_113.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_7.n_89.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_7.n_89.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_8.n_76.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_8.n_76.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_9.n_69.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_9.n_69.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_0.n_5427.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_0.n_5427.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_10.n_93.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_10.n_93.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_11.n_65.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_11.n_65.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_12.n_61.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_12.n_61.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_13.n_50.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_13.n_50.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_14.n_38.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_14.n_38.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_15.n_30.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_15.n_30.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_16.n_23.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_16.n_23.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_17.n_22.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_17.n_22.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_1.n_4828.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_1.n_4828.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_2.n_1837.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_2.n_1837.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_3.n_1575.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_3.n_1575.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_4.n_510.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_4.n_510.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_5.n_304.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_5.n_304.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_6.n_302.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_6.n_302.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_7.n_109.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_7.n_109.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_8.n_103.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_8.n_103.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_9.n_96.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_9.n_96.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_0.n_2228.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_0.n_2228.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_1.n_1059.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_1.n_1059.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_2.n_183.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_2.n_183.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_3.n_182.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_3.n_182.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_4.n_174.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_4.n_174.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_5.n_114.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_5.n_114.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_6.n_30.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_6.n_30.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_0.n_5234.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_0.n_5234.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_10.n_133.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_10.n_133.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_11.n_124.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_11.n_124.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_12.n_99.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_12.n_99.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_13.n_72.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_13.n_72.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_14.n_55.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_14.n_55.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_15.n_50.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_15.n_50.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_16.n_44.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_16.n_44.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_17.n_43.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_17.n_43.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_18.n_43.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_18.n_43.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_19.n_42.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_19.n_42.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_1.n_4531.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_1.n_4531.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_20.n_40.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_20.n_40.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_21.n_29.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_21.n_29.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_22.n_28.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_22.n_28.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_23.n_21.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_23.n_21.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_2.n_3835.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_2.n_3835.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_3.n_581.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_3.n_581.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_4.n_350.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_4.n_350.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_5.n_327.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_5.n_327.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_6.n_250.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_6.n_250.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_7.n_245.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_7.n_245.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_8.n_218.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_8.n_218.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_9.n_141.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_9.n_141.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_0.n_1578.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_0.n_1578.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_1.n_930.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_1.n_930.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_2.n_854.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_2.n_854.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_3.n_172.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_3.n_172.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_4.n_170.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_4.n_170.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_5.n_33.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_5.n_33.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_6.n_20.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_6.n_20.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_0.n_2822.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_0.n_2822.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_10.n_286.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_10.n_286.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_11.n_222.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_11.n_222.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_12.n_191.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_12.n_191.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_13.n_173.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_13.n_173.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_14.n_149.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_14.n_149.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_15.n_137.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_15.n_137.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_16.n_119.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_16.n_119.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_17.n_119.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_17.n_119.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_18.n_117.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_18.n_117.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_19.n_92.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_19.n_92.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_1.n_1740.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_1.n_1740.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_20.n_89.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_20.n_89.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_21.n_87.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_21.n_87.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_22.n_66.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_22.n_66.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_23.n_58.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_23.n_58.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_24.n_49.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_24.n_49.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_25.n_21.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_25.n_21.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_2.n_1573.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_2.n_1573.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_3.n_1258.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_3.n_1258.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_4.n_970.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_4.n_970.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_5.n_852.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_5.n_852.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_6.n_679.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_6.n_679.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_7.n_438.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_7.n_438.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_8.n_436.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_8.n_436.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_9.n_313.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_9.n_313.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_0.n_4554.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_0.n_4554.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_10.n_92.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_10.n_92.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_11.n_60.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_11.n_60.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_12.n_59.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_12.n_59.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_13.n_39.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_13.n_39.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_14.n_31.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_14.n_31.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_1.n_3576.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_1.n_3576.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_2.n_515.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_2.n_515.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_3.n_404.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_3.n_404.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_4.n_398.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_4.n_398.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_5.n_260.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_5.n_260.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_6.n_237.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_6.n_237.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_7.n_135.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_7.n_135.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_8.n_108.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_8.n_108.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_9.n_100.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_9.n_100.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000ATM.bestfold.profile.pattern_0.n_1675.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000ATM.bestfold.profile.pattern_0.n_1675.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000ATM.bestfold.profile.pattern_10.n_23.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000ATM.bestfold.profile.pattern_10.n_23.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000ATM.bestfold.profile.pattern_1.n_1673.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000ATM.bestfold.profile.pattern_1.n_1673.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000ATM.bestfold.profile.pattern_2.n_1423.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000ATM.bestfold.profile.pattern_2.n_1423.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000ATM.bestfold.profile.pattern_3.n_1311.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000ATM.bestfold.profile.pattern_3.n_1311.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000ATM.bestfold.profile.pattern_4.n_190.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000ATM.bestfold.profile.pattern_4.n_190.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000ATM.bestfold.profile.pattern_5.n_122.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000ATM.bestfold.profile.pattern_5.n_122.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000ATM.bestfold.profile.pattern_6.n_117.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000ATM.bestfold.profile.pattern_6.n_117.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000ATM.bestfold.profile.pattern_7.n_78.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000ATM.bestfold.profile.pattern_7.n_78.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000ATM.bestfold.profile.pattern_8.n_71.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000ATM.bestfold.profile.pattern_8.n_71.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000ATM.bestfold.profile.pattern_9.n_69.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000ATM.bestfold.profile.pattern_9.n_69.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_0.n_7380.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_0.n_7380.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_10.n_205.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_10.n_205.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_11.n_184.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_11.n_184.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_12.n_104.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_12.n_104.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_13.n_97.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_13.n_97.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_14.n_91.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_14.n_91.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_15.n_81.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_15.n_81.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_16.n_63.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_16.n_63.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_17.n_37.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_17.n_37.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_18.n_28.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_18.n_28.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_19.n_25.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_19.n_25.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_1.n_4770.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_1.n_4770.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_2.n_4398.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_2.n_4398.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_3.n_2181.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_3.n_2181.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_4.n_713.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_4.n_713.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_5.n_674.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_5.n_674.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_6.n_531.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_6.n_531.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_7.n_334.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_7.n_334.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_8.n_315.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_8.n_315.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_9.n_227.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_9.n_227.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_0.n_1302.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_0.n_1302.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_10.n_45.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_10.n_45.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_11.n_42.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_11.n_42.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_12.n_31.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_12.n_31.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_13.n_30.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_13.n_30.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_14.n_22.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_14.n_22.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_1.n_865.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_1.n_865.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_2.n_532.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_2.n_532.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_3.n_346.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_3.n_346.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_4.n_137.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_4.n_137.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_5.n_123.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_5.n_123.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_6.n_121.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_6.n_121.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_7.n_80.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_7.n_80.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_8.n_47.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_8.n_47.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_9.n_46.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_9.n_46.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_0.n_15215.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_0.n_15215.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_10.n_70.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_10.n_70.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_11.n_64.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_11.n_64.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_12.n_55.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_12.n_55.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_13.n_45.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_13.n_45.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_14.n_40.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_14.n_40.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_15.n_37.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_15.n_37.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_16.n_36.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_16.n_36.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_1.n_3051.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_1.n_3051.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_2.n_1793.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_2.n_1793.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_3.n_698.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_3.n_698.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_4.n_271.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_4.n_271.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_5.n_270.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_5.n_270.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_6.n_253.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_6.n_253.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_7.n_241.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_7.n_241.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_8.n_133.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_8.n_133.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_9.n_78.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_9.n_78.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_0.n_1746.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_0.n_1746.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_10.n_112.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_10.n_112.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_11.n_99.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_11.n_99.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_12.n_71.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_12.n_71.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_13.n_59.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_13.n_59.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_14.n_56.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_14.n_56.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_15.n_33.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_15.n_33.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_16.n_30.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_16.n_30.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_1.n_1627.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_1.n_1627.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_2.n_882.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_2.n_882.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_3.n_818.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_3.n_818.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_4.n_324.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_4.n_324.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_5.n_242.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_5.n_242.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_6.n_223.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_6.n_223.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_7.n_185.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_7.n_185.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_8.n_180.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_8.n_180.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_9.n_130.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_9.n_130.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_0.n_3706.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_0.n_3706.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_10.n_129.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_10.n_129.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_11.n_121.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_11.n_121.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_12.n_40.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_12.n_40.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_13.n_40.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_13.n_40.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_14.n_30.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_14.n_30.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_15.n_28.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_15.n_28.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_16.n_25.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_16.n_25.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_17.n_21.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_17.n_21.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_1.n_2391.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_1.n_2391.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_2.n_2230.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_2.n_2230.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_3.n_1836.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_3.n_1836.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_4.n_428.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_4.n_428.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_5.n_237.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_5.n_237.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_6.n_216.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_6.n_216.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_7.n_159.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_7.n_159.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_8.n_156.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_8.n_156.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_9.n_129.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_9.n_129.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_0.n_12988.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_0.n_12988.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_10.n_66.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_10.n_66.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_11.n_56.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_11.n_56.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_12.n_31.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_12.n_31.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_1.n_9869.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_1.n_9869.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_2.n_5863.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_2.n_5863.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_3.n_977.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_3.n_977.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_4.n_893.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_4.n_893.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_5.n_598.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_5.n_598.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_6.n_366.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_6.n_366.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_7.n_169.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_7.n_169.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_8.n_145.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_8.n_145.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_9.n_126.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_9.n_126.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_0.n_1871.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_0.n_1871.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_10.n_26.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_10.n_26.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_1.n_1840.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_1.n_1840.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_2.n_1321.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_2.n_1321.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_3.n_551.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_3.n_551.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_4.n_65.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_4.n_65.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_5.n_60.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_5.n_60.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_6.n_59.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_6.n_59.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_7.n_58.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_7.n_58.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_8.n_38.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_8.n_38.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_9.n_29.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_9.n_29.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_0.n_1755.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_0.n_1755.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_10.n_25.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_10.n_25.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_1.n_1069.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_1.n_1069.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_2.n_991.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_2.n_991.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_3.n_138.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_3.n_138.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_4.n_106.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_4.n_106.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_5.n_74.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_5.n_74.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_6.n_34.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_6.n_34.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_7.n_29.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_7.n_29.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_8.n_27.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_8.n_27.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_9.n_27.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_9.n_27.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_0.n_2840.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_0.n_2840.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_10.n_76.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_10.n_76.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_11.n_60.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_11.n_60.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_12.n_42.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_12.n_42.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_1.n_1291.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_1.n_1291.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_2.n_390.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_2.n_390.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_3.n_274.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_3.n_274.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_4.n_268.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_4.n_268.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_5.n_166.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_5.n_166.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_6.n_145.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_6.n_145.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_7.n_120.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_7.n_120.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_8.n_113.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_8.n_113.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_9.n_93.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_9.n_93.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_0.n_6096.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_0.n_6096.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_10.n_84.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_10.n_84.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_11.n_56.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_11.n_56.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_12.n_52.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_12.n_52.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_13.n_32.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_13.n_32.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_14.n_22.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_14.n_22.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_15.n_20.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_15.n_20.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_1.n_3900.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_1.n_3900.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_2.n_3690.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_2.n_3690.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_3.n_467.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_3.n_467.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_4.n_274.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_4.n_274.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_5.n_167.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_5.n_167.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_6.n_126.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_6.n_126.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_7.n_115.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_7.n_115.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_8.n_96.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_8.n_96.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_9.n_89.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_9.n_89.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_0.n_487.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_0.n_487.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_1.n_92.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_1.n_92.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_2.n_75.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_2.n_75.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_3.n_55.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_3.n_55.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_4.n_37.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_4.n_37.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_5.n_34.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_5.n_34.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_6.n_25.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_6.n_25.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_7.n_21.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_7.n_21.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_0.n_2755.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_0.n_2755.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_10.n_244.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_10.n_244.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_11.n_242.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_11.n_242.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_12.n_166.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_12.n_166.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_13.n_148.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_13.n_148.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_14.n_91.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_14.n_91.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_15.n_89.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_15.n_89.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_16.n_43.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_16.n_43.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_1.n_2128.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_1.n_2128.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_2.n_1361.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_2.n_1361.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_3.n_499.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_3.n_499.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_4.n_489.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_4.n_489.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_5.n_407.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_5.n_407.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_6.n_383.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_6.n_383.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_7.n_368.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_7.n_368.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_8.n_362.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_8.n_362.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_9.n_286.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_9.n_286.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_0.n_487.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_0.n_487.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_1.n_92.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_1.n_92.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_2.n_75.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_2.n_75.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_3.n_55.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_3.n_55.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_4.n_37.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_4.n_37.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_5.n_34.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_5.n_34.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_6.n_25.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_6.n_25.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_7.n_21.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_7.n_21.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_0.n_2755.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_0.n_2755.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_10.n_244.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_10.n_244.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_11.n_242.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_11.n_242.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_12.n_166.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_12.n_166.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_13.n_148.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_13.n_148.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_14.n_91.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_14.n_91.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_15.n_89.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_15.n_89.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_16.n_43.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_16.n_43.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_1.n_2128.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_1.n_2128.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_2.n_1361.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_2.n_1361.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_3.n_499.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_3.n_499.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_4.n_489.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_4.n_489.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_5.n_407.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_5.n_407.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_6.n_383.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_6.n_383.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_7.n_368.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_7.n_368.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_8.n_362.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_8.n_362.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_10.n_179.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_10.n_179.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_11.n_164.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_11.n_164.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_12.n_157.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_12.n_157.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_15.n_91.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_15.n_91.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_17.n_81.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_17.n_81.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_18.n_80.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_18.n_80.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_19.n_55.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_19.n_55.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_1.n_3467.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_1.n_3467.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_8.n_592.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_8.n_592.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_9.n_564.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_9.n_564.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_0.n_182.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_0.n_182.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_10.n_63.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_10.n_63.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_11.n_62.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_11.n_62.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_12.n_47.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_12.n_47.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_13.n_33.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_13.n_33.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_14.n_30.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_14.n_30.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_15.n_29.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_15.n_29.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_1.n_181.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_1.n_181.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_2.n_160.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_2.n_160.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_3.n_144.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_3.n_144.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_4.n_144.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_4.n_144.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_5.n_129.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_5.n_129.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_6.n_117.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_6.n_117.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_7.n_95.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_7.n_95.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_8.n_79.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_8.n_79.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_9.n_78.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_9.n_78.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_0.n_13564.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_0.n_13564.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_10.n_29.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_10.n_29.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_1.n_6428.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_1.n_6428.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_2.n_1253.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_2.n_1253.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_3.n_1194.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_3.n_1194.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_4.n_951.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_4.n_951.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_6.n_105.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_6.n_105.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_7.n_30.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_7.n_30.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_8.n_30.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_8.n_30.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_9.n_29.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_9.n_29.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_0.n_2268.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_0.n_2268.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_15.n_29.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_15.n_29.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_1.n_181.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_1.n_181.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_2.n_160.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_2.n_160.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_3.n_144.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_3.n_144.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_4.n_144.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_4.n_144.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_5.n_129.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_5.n_129.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_6.n_117.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_6.n_117.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_7.n_95.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_7.n_95.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_8.n_79.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_8.n_79.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_9.n_78.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_9.n_78.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_0.n_13564.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_0.n_13564.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_10.n_29.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_10.n_29.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_1.n_6428.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_1.n_6428.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_2.n_1253.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_2.n_1253.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_3.n_1194.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_3.n_1194.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_4.n_951.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_4.n_951.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_5.n_114.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_5.n_114.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_6.n_105.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_6.n_105.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_7.n_30.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_7.n_30.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_8.n_30.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_8.n_30.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_9.n_29.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_9.n_29.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_0.n_819.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_0.n_819.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_1.n_812.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_1.n_812.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_2.n_425.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_2.n_425.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_3.n_224.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_3.n_224.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_4.n_197.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_4.n_197.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_5.n_154.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_5.n_154.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_6.n_100.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_6.n_100.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_7.n_32.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_7.n_32.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_8.n_25.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_8.n_25.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_9.n_22.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_9.n_22.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_0.n_230.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_0.n_230.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_10.n_27.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_10.n_27.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_2.n_139.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_2.n_139.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_4.n_97.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_4.n_97.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_5.n_93.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_5.n_93.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_6.n_74.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_6.n_74.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_7.n_68.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_7.n_68.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_8.n_53.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_8.n_53.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_9.n_30.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_9.n_30.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_0.n_4756.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_0.n_4756.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_1.n_484.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_1.n_484.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_2.n_456.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_2.n_456.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_3.n_359.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_3.n_359.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_4.n_195.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_4.n_195.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_5.n_190.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_5.n_190.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_6.n_131.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_6.n_131.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_7.n_75.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_7.n_75.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_8.n_48.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_8.n_48.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_0.n_537.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_0.n_537.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_1.n_513.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_1.n_513.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_2.n_505.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_2.n_505.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_0.n_819.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_0.n_819.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_1.n_812.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_1.n_812.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_2.n_425.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_2.n_425.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_3.n_224.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_3.n_224.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_4.n_197.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_4.n_197.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_5.n_154.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_5.n_154.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_6.n_100.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_6.n_100.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_7.n_32.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_7.n_32.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_8.n_25.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_8.n_25.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_9.n_22.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_9.n_22.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_0.n_230.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_0.n_230.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_10.n_27.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_10.n_27.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_1.n_142.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_1.n_142.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_2.n_139.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_2.n_139.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_3.n_131.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_3.n_131.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_4.n_97.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_4.n_97.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_5.n_93.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_5.n_93.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_6.n_74.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_6.n_74.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_8.n_53.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_8.n_53.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_9.n_30.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_9.n_30.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_0.n_4756.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_0.n_4756.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_1.n_484.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_1.n_484.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_2.n_456.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_2.n_456.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_3.n_359.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_3.n_359.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_4.n_195.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_4.n_195.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_5.n_190.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_5.n_190.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_6.n_131.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_6.n_131.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_7.n_75.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_7.n_75.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_8.n_48.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_8.n_48.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_0.n_537.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_0.n_537.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_1.n_513.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_1.n_513.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_0.n_637.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_0.n_637.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_10.n_40.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_10.n_40.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_11.n_33.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_11.n_33.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_12.n_30.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_12.n_30.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_2.n_90.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_2.n_90.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_0.n_3328.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_0.n_3328.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_15.n_93.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_15.n_93.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_16.n_47.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_16.n_47.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_17.n_39.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_17.n_39.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_18.n_34.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_18.n_34.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_19.n_31.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_19.n_31.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_1.n_4394.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_1.n_4394.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_21.n_26.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_21.n_26.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_22.n_21.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_22.n_21.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_2.n_2797.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_2.n_2797.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_3.n_2629.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_3.n_2629.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_4.n_621.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_4.n_621.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_5.n_457.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_5.n_457.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_6.n_322.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_6.n_322.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_7.n_136.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_7.n_136.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_8.n_80.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_8.n_80.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_9.n_67.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_9.n_67.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_0.n_13951.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_0.n_13951.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_10.n_102.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_10.n_102.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_11.n_58.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_11.n_58.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_12.n_48.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_12.n_48.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_13.n_31.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_13.n_31.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_14.n_28.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_14.n_28.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_15.n_22.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_15.n_22.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_1.n_4291.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_1.n_4291.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_2.n_1529.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_2.n_1529.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_3.n_1039.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_3.n_1039.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_4.n_896.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_4.n_896.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_5.n_733.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_5.n_733.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_6.n_610.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_6.n_610.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_7.n_227.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_7.n_227.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_8.n_152.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_8.n_152.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_9.n_116.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_9.n_116.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_0.n_1470.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-201-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_0.n_1470.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_1.n_1000.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-201-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_1.n_1000.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_2.n_923.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-201-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_2.n_923.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_3.n_425.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-201-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_3.n_425.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_4.n_312.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-201-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_4.n_312.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_5.n_305.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-201-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_5.n_305.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_6.n_220.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-201-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_6.n_220.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_7.n_175.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-201-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_7.n_175.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_8.n_90.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-201-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_8.n_90.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_9.n_83.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-201-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_9.n_83.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_0.n_1470.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-206-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_0.n_1470.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_3.n_425.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-206-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_3.n_425.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_4.n_312.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-206-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_4.n_312.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_5.n_305.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-206-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_5.n_305.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_6.n_220.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-206-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_6.n_220.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_7.n_175.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-206-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_7.n_175.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_8.n_90.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-206-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_8.n_90.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_9.n_83.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-206-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_9.n_83.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_0.n_468.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_0.n_468.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_10.n_56.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_10.n_56.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_1.n_399.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_1.n_399.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_2.n_300.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_2.n_300.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_3.n_247.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_3.n_247.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_4.n_171.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_4.n_171.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_5.n_169.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_5.n_169.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_6.n_153.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_6.n_153.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_7.n_97.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_7.n_97.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_8.n_84.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_8.n_84.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_9.n_61.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_9.n_61.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_0.n_592.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_0.n_592.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_10.n_75.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_10.n_75.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_11.n_68.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_11.n_68.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_12.n_55.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_12.n_55.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_13.n_52.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_13.n_52.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_14.n_43.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_14.n_43.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_15.n_36.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_15.n_36.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_16.n_27.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_16.n_27.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_17.n_27.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_17.n_27.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_18.n_24.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_18.n_24.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_1.n_504.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_1.n_504.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_2.n_122.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_2.n_122.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_3.n_111.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_3.n_111.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_4.n_106.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_4.n_106.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_5.n_93.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_5.n_93.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_6.n_91.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_6.n_91.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_7.n_83.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_7.n_83.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_8.n_81.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_8.n_81.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_9.n_79.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_9.n_79.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/INSM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_8.n_293.PWM.meme motif-alignments-all-vs-all/INSM2/INSM2-201-vs-INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_8.n_293.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/INSM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_9.n_231.PWM.meme motif-alignments-all-vs-all/INSM2/INSM2-201-vs-INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_9.n_231.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_0.n_124.PWM.meme motif-alignments-all-vs-all/PRDM9/PRDM9-201-vs-PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_0.n_124.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_1.n_77.PWM.meme motif-alignments-all-vs-all/PRDM9/PRDM9-201-vs-PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_1.n_77.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_2.n_59.PWM.meme motif-alignments-all-vs-all/PRDM9/PRDM9-201-vs-PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_2.n_59.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_3.n_59.PWM.meme motif-alignments-all-vs-all/PRDM9/PRDM9-201-vs-PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_3.n_59.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_4.n_43.PWM.meme motif-alignments-all-vs-all/PRDM9/PRDM9-201-vs-PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_4.n_43.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_5.n_41.PWM.meme motif-alignments-all-vs-all/PRDM9/PRDM9-201-vs-PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_5.n_41.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_6.n_39.PWM.meme motif-alignments-all-vs-all/PRDM9/PRDM9-201-vs-PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_6.n_39.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_7.n_37.PWM.meme motif-alignments-all-vs-all/PRDM9/PRDM9-201-vs-PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_7.n_37.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_8.n_30.PWM.meme motif-alignments-all-vs-all/PRDM9/PRDM9-201-vs-PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_8.n_30.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_0.n_1153.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_0.n_1153.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_10.n_84.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_10.n_84.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_11.n_74.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_11.n_74.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_12.n_58.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_12.n_58.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_13.n_55.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_13.n_55.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_14.n_50.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_14.n_50.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_15.n_48.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_15.n_48.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_16.n_43.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_16.n_43.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_17.n_26.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_17.n_26.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_1.n_906.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_1.n_906.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_2.n_720.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_2.n_720.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_3.n_666.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_3.n_666.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_4.n_325.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_4.n_325.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_5.n_182.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_5.n_182.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_6.n_137.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_6.n_137.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_7.n_121.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_7.n_121.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_8.n_118.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_8.n_118.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_9.n_103.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_9.n_103.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_0.n_1153.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_0.n_1153.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_10.n_84.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_10.n_84.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_11.n_74.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_11.n_74.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_12.n_58.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_12.n_58.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_13.n_55.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_13.n_55.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_14.n_50.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_14.n_50.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_16.n_43.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_16.n_43.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_17.n_26.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_17.n_26.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_1.n_906.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_1.n_906.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_2.n_720.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_2.n_720.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_3.n_666.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_3.n_666.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_4.n_325.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_4.n_325.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_5.n_182.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_5.n_182.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_6.n_137.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_6.n_137.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_7.n_121.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_7.n_121.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_8.n_118.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_8.n_118.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_9.n_103.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_9.n_103.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_0.n_1153.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_0.n_1153.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_10.n_84.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_10.n_84.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_11.n_74.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_11.n_74.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_12.n_58.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_12.n_58.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_13.n_55.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_13.n_55.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_14.n_50.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_14.n_50.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_15.n_48.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_15.n_48.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_16.n_43.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_16.n_43.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_17.n_26.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_17.n_26.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_1.n_906.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_1.n_906.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_2.n_720.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_2.n_720.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_3.n_666.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_3.n_666.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_4.n_325.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_4.n_325.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_5.n_182.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_5.n_182.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_6.n_137.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_6.n_137.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_7.n_121.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_7.n_121.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_8.n_118.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_8.n_118.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_9.n_103.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_9.n_103.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_0.n_8793.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_0.n_8793.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_10.n_961.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_10.n_961.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_11.n_427.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_11.n_427.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_12.n_417.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_12.n_417.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_13.n_356.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_13.n_356.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_14.n_321.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_14.n_321.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_15.n_320.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_15.n_320.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_17.n_82.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_17.n_82.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_18.n_68.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_18.n_68.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_19.n_63.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_19.n_63.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_1.n_279.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_1.n_279.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_2.n_242.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_2.n_242.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_3.n_220.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_3.n_220.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_4.n_212.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_4.n_212.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_5.n_173.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_5.n_173.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_6.n_164.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_6.n_164.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_7.n_161.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_7.n_161.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_8.n_140.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_8.n_140.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_9.n_136.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_9.n_136.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HeLa-S3-ENCSR000ECY.bestfold.profile.pattern_0.n_3545.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HeLa-S3-ENCSR000ECY.bestfold.profile.pattern_0.n_3545.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HeLa-S3-ENCSR000ECY.bestfold.profile.pattern_1.n_1614.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HeLa-S3-ENCSR000ECY.bestfold.profile.pattern_1.n_1614.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HeLa-S3-ENCSR000ECY.bestfold.profile.pattern_2.n_1247.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HeLa-S3-ENCSR000ECY.bestfold.profile.pattern_2.n_1247.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM2-HEK293-ENCSR714LYA.bestfold.profile.pattern_0.n_465.PWM.meme motif-alignments-all-vs-all/PRDM2/PRDM2-201-vs-PRDM2-HEK293-ENCSR714LYA.bestfold.profile.pattern_0.n_465.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM2-HEK293-ENCSR714LYA.bestfold.profile.pattern_1.n_92.PWM.meme motif-alignments-all-vs-all/PRDM2/PRDM2-201-vs-PRDM2-HEK293-ENCSR714LYA.bestfold.profile.pattern_1.n_92.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM2-HEK293-ENCSR714LYA.bestfold.profile.pattern_2.n_61.PWM.meme motif-alignments-all-vs-all/PRDM2/PRDM2-201-vs-PRDM2-HEK293-ENCSR714LYA.bestfold.profile.pattern_2.n_61.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM2-HEK293-ENCSR714LYA.bestfold.profile.pattern_3.n_59.PWM.meme motif-alignments-all-vs-all/PRDM2/PRDM2-201-vs-PRDM2-HEK293-ENCSR714LYA.bestfold.profile.pattern_3.n_59.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM2-HEK293-ENCSR714LYA.bestfold.profile.pattern_4.n_46.PWM.meme motif-alignments-all-vs-all/PRDM2/PRDM2-201-vs-PRDM2-HEK293-ENCSR714LYA.bestfold.profile.pattern_4.n_46.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM2-HEK293-ENCSR714LYA.bestfold.profile.pattern_5.n_45.PWM.meme motif-alignments-all-vs-all/PRDM2/PRDM2-201-vs-PRDM2-HEK293-ENCSR714LYA.bestfold.profile.pattern_5.n_45.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM2-HEK293-ENCSR714LYA.bestfold.profile.pattern_6.n_25.PWM.meme motif-alignments-all-vs-all/PRDM2/PRDM2-201-vs-PRDM2-HEK293-ENCSR714LYA.bestfold.profile.pattern_6.n_25.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_2.n_71.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_2.n_71.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_4.n_44.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_4.n_44.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_5.n_38.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_5.n_38.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_12.n_642.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_12.n_642.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_13.n_634.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_13.n_634.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_14.n_614.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_14.n_614.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_15.n_610.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_15.n_610.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_16.n_597.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_16.n_597.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_17.n_559.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_17.n_559.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_18.n_536.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_18.n_536.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_19.n_529.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_19.n_529.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_1.n_1197.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_1.n_1197.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_20.n_523.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_20.n_523.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_21.n_486.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_21.n_486.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_22.n_482.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_22.n_482.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_23.n_478.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_23.n_478.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_24.n_464.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_24.n_464.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_25.n_454.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_25.n_454.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_26.n_454.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_26.n_454.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_27.n_452.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_27.n_452.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_28.n_450.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_28.n_450.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_29.n_354.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_29.n_354.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_2.n_1118.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_2.n_1118.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_30.n_339.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_30.n_339.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_31.n_338.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_31.n_338.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_32.n_337.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_32.n_337.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_33.n_331.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_33.n_331.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_34.n_328.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_34.n_328.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_35.n_322.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_35.n_322.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_36.n_298.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_36.n_298.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_37.n_295.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_37.n_295.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_38.n_294.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_38.n_294.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_39.n_288.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_39.n_288.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_3.n_989.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_3.n_989.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_40.n_278.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_40.n_278.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_41.n_273.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_41.n_273.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_42.n_270.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_42.n_270.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_43.n_268.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_43.n_268.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_44.n_264.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_44.n_264.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_45.n_250.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_45.n_250.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_46.n_242.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_46.n_242.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_47.n_199.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_47.n_199.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_48.n_198.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_48.n_198.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_49.n_167.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_49.n_167.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_4.n_958.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_4.n_958.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_50.n_162.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_50.n_162.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_51.n_157.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_51.n_157.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_52.n_138.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_52.n_138.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_53.n_37.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_53.n_37.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_5.n_880.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_5.n_880.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_6.n_810.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_6.n_810.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_7.n_687.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_7.n_687.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_8.n_686.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_8.n_686.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_9.n_682.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_9.n_682.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_0.n_4104.PWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_0.n_4104.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_10.n_43.PWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_10.n_43.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_11.n_35.PWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_11.n_35.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_1.n_1183.PWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_1.n_1183.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_2.n_899.PWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_2.n_899.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_3.n_774.PWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_3.n_774.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_4.n_737.PWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_4.n_737.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_5.n_482.PWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_5.n_482.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_6.n_399.PWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_6.n_399.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_7.n_343.PWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_7.n_343.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_8.n_180.PWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_8.n_180.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_9.n_47.PWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_9.n_47.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_0.n_4104.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_0.n_4104.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_10.n_43.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_10.n_43.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_11.n_35.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_11.n_35.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_1.n_1183.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_1.n_1183.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_2.n_899.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_2.n_899.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_3.n_774.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_3.n_774.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_4.n_737.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_4.n_737.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_5.n_482.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_5.n_482.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_6.n_399.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_6.n_399.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_7.n_343.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_7.n_343.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_8.n_180.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_8.n_180.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_9.n_47.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_9.n_47.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_0.n_6531.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_0.n_6531.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_10.n_658.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_10.n_658.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_11.n_607.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_11.n_607.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_12.n_438.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_12.n_438.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_13.n_395.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_13.n_395.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_14.n_362.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_14.n_362.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_15.n_297.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_15.n_297.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_16.n_187.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_16.n_187.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_17.n_158.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_17.n_158.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_18.n_138.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_18.n_138.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_19.n_129.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_19.n_129.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_1.n_5082.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_1.n_5082.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_20.n_72.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_20.n_72.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_21.n_50.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_21.n_50.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_22.n_42.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_22.n_42.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_23.n_35.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_23.n_35.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_24.n_31.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_24.n_31.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_25.n_23.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_25.n_23.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_26.n_23.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_26.n_23.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_27.n_22.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_27.n_22.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_28.n_21.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_28.n_21.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_2.n_4882.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_2.n_4882.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_3.n_4644.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_3.n_4644.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_4.n_3656.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_4.n_3656.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_5.n_3411.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_5.n_3411.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_6.n_1441.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_6.n_1441.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_7.n_1388.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_7.n_1388.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_8.n_1283.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_8.n_1283.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_9.n_821.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_9.n_821.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_0.n_925.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_0.n_925.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_10.n_21.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_10.n_21.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_1.n_226.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_1.n_226.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_2.n_219.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_2.n_219.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_3.n_146.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_3.n_146.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_4.n_123.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_4.n_123.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_5.n_110.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_5.n_110.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_6.n_110.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_6.n_110.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_7.n_70.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_7.n_70.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_8.n_55.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_8.n_55.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_9.n_43.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_9.n_43.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_0.n_4104.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_0.n_4104.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_10.n_43.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_10.n_43.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_11.n_35.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_11.n_35.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_1.n_1183.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_1.n_1183.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_2.n_899.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_2.n_899.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_3.n_774.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_3.n_774.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_4.n_737.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_4.n_737.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_5.n_482.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_5.n_482.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_6.n_399.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_6.n_399.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_7.n_343.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_7.n_343.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_8.n_180.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_8.n_180.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_9.n_47.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_9.n_47.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_0.n_6531.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_0.n_6531.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_10.n_658.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_10.n_658.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_11.n_607.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_11.n_607.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_12.n_438.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_12.n_438.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_13.n_395.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_13.n_395.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_14.n_362.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_14.n_362.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_15.n_297.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_15.n_297.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_16.n_187.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_16.n_187.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_17.n_158.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_17.n_158.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_18.n_138.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_18.n_138.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_19.n_129.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_19.n_129.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_1.n_5082.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_1.n_5082.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_20.n_72.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_20.n_72.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_21.n_50.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_21.n_50.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_22.n_42.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_22.n_42.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_23.n_35.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_23.n_35.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_24.n_31.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_24.n_31.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_25.n_23.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_25.n_23.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_26.n_23.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_26.n_23.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_27.n_22.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_27.n_22.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_28.n_21.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_28.n_21.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_2.n_4882.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_2.n_4882.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_3.n_4644.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_3.n_4644.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_4.n_3656.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_4.n_3656.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_5.n_3411.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_5.n_3411.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_6.n_1441.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_6.n_1441.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_7.n_1388.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_7.n_1388.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_8.n_1283.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_8.n_1283.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_9.n_821.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_9.n_821.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_0.n_925.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_0.n_925.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_10.n_21.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_10.n_21.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_1.n_226.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_1.n_226.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_2.n_219.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_2.n_219.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_3.n_146.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_3.n_146.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_4.n_123.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_4.n_123.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_5.n_110.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_5.n_110.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_6.n_110.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_6.n_110.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_7.n_70.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_7.n_70.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_8.n_55.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_8.n_55.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_9.n_43.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_9.n_43.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_0.n_1881.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_0.n_1881.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_10.n_197.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_10.n_197.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_11.n_186.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_11.n_186.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_12.n_157.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_12.n_157.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_13.n_126.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_13.n_126.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_14.n_119.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_14.n_119.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_15.n_87.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_15.n_87.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_16.n_67.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_16.n_67.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_17.n_66.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_17.n_66.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_18.n_50.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_18.n_50.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_19.n_45.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_19.n_45.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_1.n_1316.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_1.n_1316.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_20.n_44.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_20.n_44.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_21.n_35.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_21.n_35.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_22.n_31.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_22.n_31.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_2.n_1056.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_2.n_1056.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_3.n_697.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_3.n_697.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_4.n_642.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_4.n_642.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_5.n_551.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_5.n_551.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_6.n_498.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_6.n_498.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_7.n_496.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_7.n_496.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_8.n_237.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_8.n_237.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_9.n_222.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_9.n_222.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_0.n_990.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_0.n_990.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_10.n_48.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_10.n_48.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_11.n_42.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_11.n_42.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_12.n_40.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_12.n_40.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_13.n_38.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_13.n_38.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_14.n_20.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_14.n_20.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_1.n_317.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_1.n_317.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_2.n_290.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_2.n_290.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_3.n_180.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_3.n_180.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_4.n_165.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_4.n_165.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_5.n_157.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_5.n_157.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_6.n_107.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_6.n_107.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_7.n_101.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_7.n_101.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_8.n_69.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_8.n_69.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_9.n_50.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_9.n_50.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_0.n_94.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_0.n_94.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_1.n_57.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_1.n_57.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_2.n_36.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_2.n_36.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_3.n_35.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_3.n_35.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_4.n_34.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_4.n_34.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_5.n_31.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_5.n_31.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_6.n_24.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_6.n_24.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_0.n_1810.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_0.n_1810.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_10.n_911.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_10.n_911.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_11.n_902.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_11.n_902.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_12.n_900.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_12.n_900.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_13.n_883.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_13.n_883.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_14.n_855.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_14.n_855.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_15.n_839.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_15.n_839.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_16.n_795.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_16.n_795.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_17.n_786.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_17.n_786.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_18.n_766.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_18.n_766.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_19.n_709.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_19.n_709.PWM
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python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_31.n_485.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_31.n_485.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_32.n_479.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_32.n_479.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_33.n_479.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_33.n_479.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_34.n_457.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_34.n_457.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_35.n_454.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_35.n_454.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_36.n_439.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_36.n_439.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_37.n_424.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_37.n_424.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_38.n_406.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_38.n_406.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_39.n_393.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_39.n_393.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_3.n_1136.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_3.n_1136.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_40.n_381.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_40.n_381.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_41.n_366.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_41.n_366.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_42.n_307.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_42.n_307.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_43.n_300.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_43.n_300.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_44.n_278.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_44.n_278.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_45.n_266.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_45.n_266.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_46.n_231.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_46.n_231.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_47.n_219.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_47.n_219.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_4.n_1065.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_4.n_1065.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_5.n_992.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_5.n_992.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_6.n_977.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_6.n_977.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_7.n_959.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_7.n_959.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_8.n_941.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_8.n_941.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_9.n_924.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_9.n_924.PWM
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RLF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RLF-K562-ENCSR718SDE.bestfold.profile.pattern_0.n_2283.PWM.meme motif-alignments-all-vs-all/RLF/RLF-201-vs-RLF-K562-ENCSR718SDE.bestfold.profile.pattern_0.n_2283.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RLF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RLF-K562-ENCSR718SDE.bestfold.profile.pattern_1.n_412.PWM.meme motif-alignments-all-vs-all/RLF/RLF-201-vs-RLF-K562-ENCSR718SDE.bestfold.profile.pattern_1.n_412.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RLF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RLF-K562-ENCSR718SDE.bestfold.profile.pattern_2.n_392.PWM.meme motif-alignments-all-vs-all/RLF/RLF-201-vs-RLF-K562-ENCSR718SDE.bestfold.profile.pattern_2.n_392.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RLF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RLF-K562-ENCSR718SDE.bestfold.profile.pattern_3.n_379.PWM.meme motif-alignments-all-vs-all/RLF/RLF-201-vs-RLF-K562-ENCSR718SDE.bestfold.profile.pattern_3.n_379.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RLF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RLF-K562-ENCSR718SDE.bestfold.profile.pattern_4.n_270.PWM.meme motif-alignments-all-vs-all/RLF/RLF-201-vs-RLF-K562-ENCSR718SDE.bestfold.profile.pattern_4.n_270.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RLF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RLF-K562-ENCSR718SDE.bestfold.profile.pattern_5.n_206.PWM.meme motif-alignments-all-vs-all/RLF/RLF-201-vs-RLF-K562-ENCSR718SDE.bestfold.profile.pattern_5.n_206.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RLF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RLF-K562-ENCSR718SDE.bestfold.profile.pattern_6.n_193.PWM.meme motif-alignments-all-vs-all/RLF/RLF-201-vs-RLF-K562-ENCSR718SDE.bestfold.profile.pattern_6.n_193.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RLF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RLF-K562-ENCSR718SDE.bestfold.profile.pattern_7.n_149.PWM.meme motif-alignments-all-vs-all/RLF/RLF-201-vs-RLF-K562-ENCSR718SDE.bestfold.profile.pattern_7.n_149.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RLF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RLF-K562-ENCSR718SDE.bestfold.profile.pattern_8.n_82.PWM.meme motif-alignments-all-vs-all/RLF/RLF-201-vs-RLF-K562-ENCSR718SDE.bestfold.profile.pattern_8.n_82.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RLF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RLF-K562-ENCSR718SDE.bestfold.profile.pattern_9.n_20.PWM.meme motif-alignments-all-vs-all/RLF/RLF-201-vs-RLF-K562-ENCSR718SDE.bestfold.profile.pattern_9.n_20.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_0.n_2618.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_0.n_2618.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_10.n_35.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_10.n_35.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_1.n_2597.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_1.n_2597.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_2.n_1307.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_2.n_1307.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_3.n_376.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_3.n_376.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_4.n_320.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_4.n_320.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_5.n_249.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_5.n_249.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_6.n_205.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_6.n_205.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_7.n_198.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_7.n_198.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_8.n_104.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_8.n_104.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_9.n_78.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_9.n_78.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_0.n_1553.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_0.n_1553.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_10.n_22.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_10.n_22.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_1.n_1193.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_1.n_1193.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_2.n_1179.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_2.n_1179.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_3.n_903.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_3.n_903.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_4.n_461.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_4.n_461.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_5.n_224.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_5.n_224.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_6.n_142.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_6.n_142.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_7.n_129.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_7.n_129.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_8.n_125.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_8.n_125.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_9.n_56.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_9.n_56.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_0.n_2618.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_0.n_2618.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_10.n_35.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_10.n_35.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_1.n_2597.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_1.n_2597.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_2.n_1307.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_2.n_1307.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_3.n_376.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_3.n_376.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_4.n_320.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_4.n_320.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_5.n_249.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_5.n_249.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_6.n_205.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_6.n_205.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_7.n_198.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_7.n_198.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_8.n_104.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_8.n_104.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_9.n_78.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_9.n_78.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_0.n_1553.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_0.n_1553.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_10.n_22.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_10.n_22.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_1.n_1193.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_1.n_1193.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_2.n_1179.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_2.n_1179.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_3.n_903.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_3.n_903.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_4.n_461.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_4.n_461.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_5.n_224.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_5.n_224.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_6.n_142.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_6.n_142.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_7.n_129.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_7.n_129.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_8.n_125.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_8.n_125.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_9.n_56.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_9.n_56.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/YY2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_0.n_5039.PWM.meme motif-alignments-all-vs-all/YY2/YY2-201-vs-YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_0.n_5039.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/YY2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_1.n_596.PWM.meme motif-alignments-all-vs-all/YY2/YY2-201-vs-YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_1.n_596.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/YY2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_2.n_313.PWM.meme motif-alignments-all-vs-all/YY2/YY2-201-vs-YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_2.n_313.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/YY2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_3.n_220.PWM.meme motif-alignments-all-vs-all/YY2/YY2-201-vs-YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_3.n_220.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/YY2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_4.n_198.PWM.meme motif-alignments-all-vs-all/YY2/YY2-201-vs-YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_4.n_198.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/YY2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_5.n_144.PWM.meme motif-alignments-all-vs-all/YY2/YY2-201-vs-YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_5.n_144.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/YY2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_6.n_52.PWM.meme motif-alignments-all-vs-all/YY2/YY2-201-vs-YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_6.n_52.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/YY2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_7.n_44.PWM.meme motif-alignments-all-vs-all/YY2/YY2-201-vs-YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_7.n_44.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLIS2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_0.n_16134.PWM.meme motif-alignments-all-vs-all/GLIS2/GLIS2-201-vs-GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_0.n_16134.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLIS2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_10.n_22.PWM.meme motif-alignments-all-vs-all/GLIS2/GLIS2-201-vs-GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_10.n_22.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLIS2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_1.n_888.PWM.meme motif-alignments-all-vs-all/GLIS2/GLIS2-201-vs-GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_1.n_888.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLIS2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_2.n_765.PWM.meme motif-alignments-all-vs-all/GLIS2/GLIS2-201-vs-GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_2.n_765.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLIS2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_3.n_629.PWM.meme motif-alignments-all-vs-all/GLIS2/GLIS2-201-vs-GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_3.n_629.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLIS2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_4.n_306.PWM.meme motif-alignments-all-vs-all/GLIS2/GLIS2-201-vs-GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_4.n_306.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLIS2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_5.n_28.PWM.meme motif-alignments-all-vs-all/GLIS2/GLIS2-201-vs-GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_5.n_28.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLIS2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_6.n_25.PWM.meme motif-alignments-all-vs-all/GLIS2/GLIS2-201-vs-GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_6.n_25.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLIS2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_7.n_25.PWM.meme motif-alignments-all-vs-all/GLIS2/GLIS2-201-vs-GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_7.n_25.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLIS2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_8.n_24.PWM.meme motif-alignments-all-vs-all/GLIS2/GLIS2-201-vs-GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_8.n_24.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLIS2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_9.n_23.PWM.meme motif-alignments-all-vs-all/GLIS2/GLIS2-201-vs-GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_9.n_23.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_0.n_24215.PWM.meme motif-alignments-all-vs-all/SCRT2/SCRT2-201-vs-SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_0.n_24215.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_10.n_37.PWM.meme motif-alignments-all-vs-all/SCRT2/SCRT2-201-vs-SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_10.n_37.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_11.n_25.PWM.meme motif-alignments-all-vs-all/SCRT2/SCRT2-201-vs-SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_11.n_25.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_1.n_1059.PWM.meme motif-alignments-all-vs-all/SCRT2/SCRT2-201-vs-SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_1.n_1059.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_2.n_587.PWM.meme motif-alignments-all-vs-all/SCRT2/SCRT2-201-vs-SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_2.n_587.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_3.n_444.PWM.meme motif-alignments-all-vs-all/SCRT2/SCRT2-201-vs-SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_3.n_444.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_4.n_275.PWM.meme motif-alignments-all-vs-all/SCRT2/SCRT2-201-vs-SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_4.n_275.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_5.n_184.PWM.meme motif-alignments-all-vs-all/SCRT2/SCRT2-201-vs-SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_5.n_184.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_6.n_157.PWM.meme motif-alignments-all-vs-all/SCRT2/SCRT2-201-vs-SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_6.n_157.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_7.n_128.PWM.meme motif-alignments-all-vs-all/SCRT2/SCRT2-201-vs-SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_7.n_128.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_8.n_92.PWM.meme motif-alignments-all-vs-all/SCRT2/SCRT2-201-vs-SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_8.n_92.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_9.n_66.PWM.meme motif-alignments-all-vs-all/SCRT2/SCRT2-201-vs-SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_9.n_66.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_0.n_7917.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_0.n_7917.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_10.n_63.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_10.n_63.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_11.n_44.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_11.n_44.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_12.n_30.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_12.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_13.n_23.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_13.n_23.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_1.n_7374.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_1.n_7374.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_2.n_4419.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_2.n_4419.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_3.n_2913.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_3.n_2913.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_4.n_2529.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_4.n_2529.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_5.n_2001.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_5.n_2001.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_6.n_1460.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_6.n_1460.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_7.n_825.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_7.n_825.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_8.n_388.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_8.n_388.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_9.n_70.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_9.n_70.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_0.n_409.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_0.n_409.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_1.n_197.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_1.n_197.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_2.n_121.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_2.n_121.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_3.n_48.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_3.n_48.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_4.n_47.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_4.n_47.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_5.n_42.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_5.n_42.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_6.n_39.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_6.n_39.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_7.n_37.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_7.n_37.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_8.n_34.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_8.n_34.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_9.n_27.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_9.n_27.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_0.n_178.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_0.n_178.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_1.n_139.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_1.n_139.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_2.n_109.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_2.n_109.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_3.n_88.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_3.n_88.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_4.n_75.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_4.n_75.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_5.n_65.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_5.n_65.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_6.n_62.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_6.n_62.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_7.n_39.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_7.n_39.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_8.n_30.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_8.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_9.n_29.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_9.n_29.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_0.n_2026.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_0.n_2026.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_10.n_204.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_10.n_204.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_11.n_148.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_11.n_148.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_12.n_94.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_12.n_94.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_13.n_70.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_13.n_70.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_1.n_1471.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_1.n_1471.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_2.n_1412.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_2.n_1412.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_3.n_1088.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_3.n_1088.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_4.n_632.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_4.n_632.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_5.n_357.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_5.n_357.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_6.n_346.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_6.n_346.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_7.n_328.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_7.n_328.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_8.n_239.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_8.n_239.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_9.n_207.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_9.n_207.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_0.n_7917.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_0.n_7917.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_10.n_63.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_10.n_63.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_11.n_44.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_11.n_44.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_12.n_30.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_12.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_13.n_23.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_13.n_23.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_1.n_7374.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_1.n_7374.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_2.n_4419.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_2.n_4419.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_3.n_2913.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_3.n_2913.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_4.n_2529.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_4.n_2529.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_5.n_2001.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_5.n_2001.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_6.n_1460.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_6.n_1460.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_7.n_825.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_7.n_825.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_8.n_388.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_8.n_388.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_9.n_70.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_9.n_70.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_0.n_409.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_0.n_409.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_1.n_197.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_1.n_197.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_2.n_121.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_2.n_121.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_3.n_48.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_3.n_48.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_4.n_47.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_4.n_47.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_5.n_42.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_5.n_42.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_6.n_39.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_6.n_39.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_7.n_37.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_7.n_37.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_8.n_34.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_8.n_34.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_9.n_27.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_9.n_27.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_0.n_178.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_0.n_178.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_1.n_139.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_1.n_139.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_2.n_109.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_2.n_109.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_3.n_88.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_3.n_88.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_4.n_75.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_4.n_75.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_5.n_65.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_5.n_65.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_6.n_62.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_6.n_62.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_7.n_39.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_7.n_39.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_8.n_30.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_8.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_9.n_29.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_9.n_29.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_0.n_2026.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_0.n_2026.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_10.n_204.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_10.n_204.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_11.n_148.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_11.n_148.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_12.n_94.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_12.n_94.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_13.n_70.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_13.n_70.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_1.n_1471.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_1.n_1471.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_2.n_1412.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_2.n_1412.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_3.n_1088.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_3.n_1088.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_4.n_632.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_4.n_632.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_5.n_357.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_5.n_357.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_6.n_346.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_6.n_346.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_7.n_328.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_7.n_328.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_8.n_239.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_8.n_239.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_9.n_207.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_9.n_207.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_0.n_7917.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_0.n_7917.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_10.n_63.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_10.n_63.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_11.n_44.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_11.n_44.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_12.n_30.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_12.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_13.n_23.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_13.n_23.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_1.n_7374.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_1.n_7374.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_2.n_4419.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_2.n_4419.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_3.n_2913.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_3.n_2913.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_4.n_2529.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_4.n_2529.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_5.n_2001.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_5.n_2001.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_6.n_1460.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_6.n_1460.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_7.n_825.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_7.n_825.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_8.n_388.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_8.n_388.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_9.n_70.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_9.n_70.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_0.n_409.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_0.n_409.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_1.n_197.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_1.n_197.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_2.n_121.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_2.n_121.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_3.n_48.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_3.n_48.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_4.n_47.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_4.n_47.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_5.n_42.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_5.n_42.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_6.n_39.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_6.n_39.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_7.n_37.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_7.n_37.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_8.n_34.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_8.n_34.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_9.n_27.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_9.n_27.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_0.n_178.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_0.n_178.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_1.n_139.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_1.n_139.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_2.n_109.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_2.n_109.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_3.n_88.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_3.n_88.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_4.n_75.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_4.n_75.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_5.n_65.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_5.n_65.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_6.n_62.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_6.n_62.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_7.n_39.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_7.n_39.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_8.n_30.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_8.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_9.n_29.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_9.n_29.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_0.n_2026.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_0.n_2026.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_10.n_204.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_10.n_204.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_11.n_148.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_11.n_148.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_12.n_94.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_12.n_94.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_13.n_70.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_13.n_70.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_1.n_1471.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_1.n_1471.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_2.n_1412.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_2.n_1412.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_3.n_1088.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_3.n_1088.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_4.n_632.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_4.n_632.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_5.n_357.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_5.n_357.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_6.n_346.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_6.n_346.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_7.n_328.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_7.n_328.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_8.n_239.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_8.n_239.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_9.n_207.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_9.n_207.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_0.n_7917.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_0.n_7917.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_10.n_63.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_10.n_63.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_11.n_44.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_11.n_44.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_12.n_30.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_12.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_13.n_23.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_13.n_23.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_1.n_7374.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_1.n_7374.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_2.n_4419.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_2.n_4419.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_3.n_2913.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_3.n_2913.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_4.n_2529.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_4.n_2529.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_5.n_2001.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_5.n_2001.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_6.n_1460.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_6.n_1460.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_7.n_825.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_7.n_825.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_8.n_388.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_8.n_388.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_9.n_70.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_9.n_70.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_0.n_409.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_0.n_409.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_1.n_197.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_1.n_197.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_2.n_121.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_2.n_121.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_3.n_48.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_3.n_48.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_4.n_47.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_4.n_47.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_5.n_42.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_5.n_42.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_6.n_39.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_6.n_39.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_7.n_37.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_7.n_37.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_8.n_34.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_8.n_34.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_9.n_27.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_9.n_27.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_0.n_178.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_0.n_178.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_1.n_139.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_1.n_139.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_2.n_109.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_2.n_109.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_3.n_88.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_3.n_88.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_4.n_75.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_4.n_75.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_5.n_65.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_5.n_65.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_6.n_62.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_6.n_62.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_7.n_39.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_7.n_39.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_8.n_30.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_8.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_9.n_29.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_9.n_29.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_0.n_2026.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_0.n_2026.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_10.n_204.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_10.n_204.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_11.n_148.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_11.n_148.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_12.n_94.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_12.n_94.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_13.n_70.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_13.n_70.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_1.n_1471.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_1.n_1471.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_2.n_1412.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_2.n_1412.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_3.n_1088.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_3.n_1088.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_4.n_632.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_4.n_632.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_5.n_357.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_5.n_357.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_6.n_346.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_6.n_346.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_7.n_328.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_7.n_328.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_8.n_239.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_8.n_239.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_9.n_207.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_9.n_207.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_0.n_1000.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_0.n_1000.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_10.n_168.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_10.n_168.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_11.n_87.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_11.n_87.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_12.n_72.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_12.n_72.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_13.n_66.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_13.n_66.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_14.n_60.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_14.n_60.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_15.n_49.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_15.n_49.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_16.n_45.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_16.n_45.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_17.n_35.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_17.n_35.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_18.n_21.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_18.n_21.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_19.n_21.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_19.n_21.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_1.n_598.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_1.n_598.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_2.n_383.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_2.n_383.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_3.n_364.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_3.n_364.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_4.n_332.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_4.n_332.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_5.n_291.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_5.n_291.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_6.n_241.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_6.n_241.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_7.n_230.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_7.n_230.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_8.n_179.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_8.n_179.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_9.n_172.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_9.n_172.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_0.n_1000.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_0.n_1000.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_10.n_168.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_10.n_168.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_11.n_87.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_11.n_87.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_12.n_72.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_12.n_72.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_13.n_66.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_13.n_66.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_14.n_60.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_14.n_60.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_15.n_49.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_15.n_49.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_16.n_45.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_16.n_45.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_17.n_35.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_17.n_35.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_18.n_21.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_18.n_21.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_19.n_21.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_19.n_21.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_1.n_598.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_1.n_598.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_2.n_383.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_2.n_383.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_3.n_364.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_3.n_364.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_4.n_332.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_4.n_332.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_5.n_291.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_5.n_291.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_6.n_241.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_6.n_241.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_7.n_230.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_7.n_230.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_8.n_179.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_8.n_179.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_9.n_172.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_9.n_172.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_0.n_1000.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_0.n_1000.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_10.n_168.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_10.n_168.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_11.n_87.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_11.n_87.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_12.n_72.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_12.n_72.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_13.n_66.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_13.n_66.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_14.n_60.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_14.n_60.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_15.n_49.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_15.n_49.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_16.n_45.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_16.n_45.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_17.n_35.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_17.n_35.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_18.n_21.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_18.n_21.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_19.n_21.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_19.n_21.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_1.n_598.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_1.n_598.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_2.n_383.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_2.n_383.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_3.n_364.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_3.n_364.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_4.n_332.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_4.n_332.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_5.n_291.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_5.n_291.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_6.n_241.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_6.n_241.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_7.n_230.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_7.n_230.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_8.n_179.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_8.n_179.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_9.n_172.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_9.n_172.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_0.n_1000.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_0.n_1000.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_10.n_168.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_10.n_168.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_11.n_87.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_11.n_87.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_12.n_72.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_12.n_72.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_13.n_66.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_13.n_66.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_14.n_60.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_14.n_60.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_15.n_49.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_15.n_49.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_16.n_45.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_16.n_45.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_17.n_35.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_17.n_35.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_18.n_21.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_18.n_21.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_19.n_21.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_19.n_21.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_1.n_598.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_1.n_598.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_2.n_383.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_2.n_383.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_3.n_364.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_3.n_364.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_4.n_332.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_4.n_332.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_5.n_291.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_5.n_291.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_6.n_241.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_6.n_241.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_7.n_230.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_7.n_230.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_8.n_179.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_8.n_179.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_9.n_172.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_9.n_172.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_0.n_1000.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_0.n_1000.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_10.n_168.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_10.n_168.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_11.n_87.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_11.n_87.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_12.n_72.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_12.n_72.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_13.n_66.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_13.n_66.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_14.n_60.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_14.n_60.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_15.n_49.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_15.n_49.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_16.n_45.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_16.n_45.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_17.n_35.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_17.n_35.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_18.n_21.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_18.n_21.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_19.n_21.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_19.n_21.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_1.n_598.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_1.n_598.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_2.n_383.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_2.n_383.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_3.n_364.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_3.n_364.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_4.n_332.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_4.n_332.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_5.n_291.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_5.n_291.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_6.n_241.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_6.n_241.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_7.n_230.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_7.n_230.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_8.n_179.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_8.n_179.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_9.n_172.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_9.n_172.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-22Rv1-ENCSR246MLJ.bestfold.profile.pattern_0.n_27.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-22Rv1-ENCSR246MLJ.bestfold.profile.pattern_0.n_27.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-22Rv1-ENCSR246MLJ.bestfold.profile.pattern_1.n_23.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-22Rv1-ENCSR246MLJ.bestfold.profile.pattern_1.n_23.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-22Rv1-ENCSR246MLJ.bestfold.profile.pattern_2.n_22.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-22Rv1-ENCSR246MLJ.bestfold.profile.pattern_2.n_22.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-22Rv1-ENCSR246MLJ.bestfold.profile.pattern_3.n_21.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-22Rv1-ENCSR246MLJ.bestfold.profile.pattern_3.n_21.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-22Rv1-ENCSR246MLJ.bestfold.profile.pattern_4.n_20.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-22Rv1-ENCSR246MLJ.bestfold.profile.pattern_4.n_20.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_0.n_9230.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_0.n_9230.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_1.n_278.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_1.n_278.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_2.n_261.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_2.n_261.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_3.n_135.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_3.n_135.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_4.n_123.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_4.n_123.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_5.n_84.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_5.n_84.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_6.n_66.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_6.n_66.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_7.n_29.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_7.n_29.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_8.n_26.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_8.n_26.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_0.n_12729.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_0.n_12729.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_1.n_177.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_1.n_177.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_2.n_94.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_2.n_94.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_3.n_50.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_3.n_50.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_4.n_34.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_4.n_34.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_5.n_25.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_5.n_25.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_0.n_6751.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_0.n_6751.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_10.n_149.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_10.n_149.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_11.n_99.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_11.n_99.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_12.n_74.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_12.n_74.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_13.n_67.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_13.n_67.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_14.n_61.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_14.n_61.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_15.n_59.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_15.n_59.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_16.n_55.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_16.n_55.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_17.n_51.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_17.n_51.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_18.n_47.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_18.n_47.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_19.n_45.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_19.n_45.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_1.n_2378.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_1.n_2378.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_20.n_45.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_20.n_45.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_21.n_30.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_21.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_22.n_25.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_22.n_25.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_23.n_25.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_23.n_25.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_2.n_353.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_2.n_353.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_3.n_291.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_3.n_291.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_4.n_245.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_4.n_245.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_5.n_233.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_5.n_233.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_6.n_218.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_6.n_218.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_7.n_191.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_7.n_191.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_8.n_182.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_8.n_182.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_9.n_181.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_9.n_181.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_0.n_16997.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_0.n_16997.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_10.n_288.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_10.n_288.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_11.n_249.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_11.n_249.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_12.n_228.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_12.n_228.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_13.n_114.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_13.n_114.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_14.n_94.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_14.n_94.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_15.n_40.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_15.n_40.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_16.n_38.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_16.n_38.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_1.n_2712.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_1.n_2712.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_2.n_2270.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_2.n_2270.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_3.n_693.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_3.n_693.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_4.n_640.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_4.n_640.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_5.n_611.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_5.n_611.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_6.n_415.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_6.n_415.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_7.n_396.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_7.n_396.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_8.n_366.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_8.n_366.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_9.n_342.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_9.n_342.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_0.n_15446.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_0.n_15446.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_10.n_198.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_10.n_198.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_11.n_163.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_11.n_163.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_12.n_162.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_12.n_162.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_13.n_130.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_13.n_130.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_14.n_92.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_14.n_92.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_15.n_32.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_15.n_32.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_16.n_30.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_16.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_17.n_20.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_17.n_20.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_1.n_1113.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_1.n_1113.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_2.n_501.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_2.n_501.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_3.n_360.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_3.n_360.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_4.n_297.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_4.n_297.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_5.n_294.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_5.n_294.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_6.n_292.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_6.n_292.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_7.n_275.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_7.n_275.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_8.n_235.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_8.n_235.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_9.n_227.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_9.n_227.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_0.n_12661.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_0.n_12661.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_10.n_50.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_10.n_50.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_11.n_50.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_11.n_50.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_12.n_40.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_12.n_40.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_13.n_39.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_13.n_39.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_14.n_32.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_14.n_32.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_15.n_29.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_15.n_29.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_16.n_20.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_16.n_20.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_1.n_404.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_1.n_404.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_2.n_336.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_2.n_336.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_3.n_221.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_3.n_221.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_4.n_220.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_4.n_220.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_5.n_197.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_5.n_197.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_6.n_187.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_6.n_187.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_7.n_101.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_7.n_101.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_8.n_100.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_8.n_100.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_9.n_54.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_9.n_54.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_0.n_7900.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_0.n_7900.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_10.n_100.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_10.n_100.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_11.n_97.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_11.n_97.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_12.n_96.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_12.n_96.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_13.n_88.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_13.n_88.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_14.n_88.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_14.n_88.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_15.n_86.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_15.n_86.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_16.n_73.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_16.n_73.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_17.n_53.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_17.n_53.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_18.n_52.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_18.n_52.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_1.n_1762.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_1.n_1762.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_2.n_314.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_2.n_314.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_3.n_279.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_3.n_279.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_4.n_256.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_4.n_256.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_5.n_248.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_5.n_248.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_6.n_206.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_6.n_206.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_7.n_183.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_7.n_183.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_8.n_137.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_8.n_137.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_9.n_127.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_9.n_127.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL3-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_0.n_2058.PWM.meme motif-alignments-all-vs-all/OVOL3/OVOL3-202-vs-OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_0.n_2058.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL3-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_1.n_1860.PWM.meme motif-alignments-all-vs-all/OVOL3/OVOL3-202-vs-OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_1.n_1860.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL3-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_2.n_749.PWM.meme motif-alignments-all-vs-all/OVOL3/OVOL3-202-vs-OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_2.n_749.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL3-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_3.n_535.PWM.meme motif-alignments-all-vs-all/OVOL3/OVOL3-202-vs-OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_3.n_535.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL3-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_4.n_344.PWM.meme motif-alignments-all-vs-all/OVOL3/OVOL3-202-vs-OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_4.n_344.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL3-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_5.n_202.PWM.meme motif-alignments-all-vs-all/OVOL3/OVOL3-202-vs-OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_5.n_202.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL3-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_6.n_137.PWM.meme motif-alignments-all-vs-all/OVOL3/OVOL3-202-vs-OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_6.n_137.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL3-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_7.n_63.PWM.meme motif-alignments-all-vs-all/OVOL3/OVOL3-202-vs-OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_7.n_63.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_0.n_7222.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_0.n_7222.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_10.n_303.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_10.n_303.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_11.n_226.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_11.n_226.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_12.n_180.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_12.n_180.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_13.n_80.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_13.n_80.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_14.n_49.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_14.n_49.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_15.n_46.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_15.n_46.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_16.n_39.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_16.n_39.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_1.n_3414.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_1.n_3414.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_2.n_3287.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_2.n_3287.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_3.n_3270.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_3.n_3270.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_4.n_1453.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_4.n_1453.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_5.n_1223.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_5.n_1223.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_6.n_1128.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_6.n_1128.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_7.n_612.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_7.n_612.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_8.n_512.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_8.n_512.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_9.n_347.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_9.n_347.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/AEBP2-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_0.n_1401.PWM.meme motif-alignments-all-vs-all/AEBP2/AEBP2-202-vs-AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_0.n_1401.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/AEBP2-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_1.n_191.PWM.meme motif-alignments-all-vs-all/AEBP2/AEBP2-202-vs-AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_1.n_191.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/AEBP2-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_2.n_61.PWM.meme motif-alignments-all-vs-all/AEBP2/AEBP2-202-vs-AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_2.n_61.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/AEBP2-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_3.n_61.PWM.meme motif-alignments-all-vs-all/AEBP2/AEBP2-202-vs-AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_3.n_61.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/AEBP2-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_4.n_46.PWM.meme motif-alignments-all-vs-all/AEBP2/AEBP2-202-vs-AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_4.n_46.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/AEBP2-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_5.n_45.PWM.meme motif-alignments-all-vs-all/AEBP2/AEBP2-202-vs-AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_5.n_45.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/AEBP2-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_6.n_35.PWM.meme motif-alignments-all-vs-all/AEBP2/AEBP2-202-vs-AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_6.n_35.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/AEBP2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_0.n_1401.PWM.meme motif-alignments-all-vs-all/AEBP2/AEBP2-204-vs-AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_0.n_1401.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/AEBP2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_1.n_191.PWM.meme motif-alignments-all-vs-all/AEBP2/AEBP2-204-vs-AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_1.n_191.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/AEBP2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_2.n_61.PWM.meme motif-alignments-all-vs-all/AEBP2/AEBP2-204-vs-AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_2.n_61.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/AEBP2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_3.n_61.PWM.meme motif-alignments-all-vs-all/AEBP2/AEBP2-204-vs-AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_3.n_61.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/AEBP2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_4.n_46.PWM.meme motif-alignments-all-vs-all/AEBP2/AEBP2-204-vs-AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_4.n_46.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/AEBP2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_5.n_45.PWM.meme motif-alignments-all-vs-all/AEBP2/AEBP2-204-vs-AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_5.n_45.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/AEBP2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_6.n_35.PWM.meme motif-alignments-all-vs-all/AEBP2/AEBP2-204-vs-AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_6.n_35.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_0.n_3527.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_0.n_3527.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_10.n_189.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_10.n_189.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_11.n_187.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_11.n_187.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_12.n_183.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_12.n_183.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_13.n_174.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_13.n_174.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_14.n_112.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_14.n_112.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_15.n_72.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_15.n_72.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_16.n_33.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_16.n_33.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_17.n_33.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_17.n_33.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_18.n_29.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_18.n_29.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_1.n_3392.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_1.n_3392.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_2.n_2470.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_2.n_2470.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_3.n_1155.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_3.n_1155.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_4.n_838.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_4.n_838.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_5.n_752.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_5.n_752.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_6.n_658.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_6.n_658.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_7.n_564.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_7.n_564.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_8.n_295.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_8.n_295.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_9.n_231.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_9.n_231.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_0.n_1217.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_0.n_1217.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_10.n_83.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_10.n_83.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_11.n_36.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_11.n_36.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_12.n_32.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_12.n_32.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_1.n_1000.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_1.n_1000.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_2.n_434.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_2.n_434.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_3.n_428.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_3.n_428.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_4.n_371.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_4.n_371.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_5.n_331.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_5.n_331.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_6.n_150.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_6.n_150.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_7.n_121.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_7.n_121.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_8.n_109.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_8.n_109.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_9.n_91.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_9.n_91.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_0.n_3527.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_0.n_3527.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_10.n_189.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_10.n_189.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_11.n_187.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_11.n_187.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_12.n_183.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_12.n_183.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_13.n_174.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_13.n_174.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_14.n_112.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_14.n_112.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_15.n_72.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_15.n_72.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_16.n_33.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_16.n_33.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_17.n_33.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_17.n_33.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_18.n_29.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_18.n_29.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_1.n_3392.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_1.n_3392.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_2.n_2470.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_2.n_2470.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_3.n_1155.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_3.n_1155.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_4.n_838.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_4.n_838.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_5.n_752.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_5.n_752.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_6.n_658.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_6.n_658.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_7.n_564.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_7.n_564.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_8.n_295.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_8.n_295.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_9.n_231.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_9.n_231.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_0.n_1217.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_0.n_1217.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_10.n_83.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_10.n_83.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_11.n_36.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_11.n_36.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_12.n_32.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_12.n_32.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_1.n_1000.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_1.n_1000.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_2.n_434.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_2.n_434.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_3.n_428.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_3.n_428.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_4.n_371.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_4.n_371.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_5.n_331.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_5.n_331.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_6.n_150.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_6.n_150.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_7.n_121.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_7.n_121.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_8.n_109.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_8.n_109.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_9.n_91.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_9.n_91.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_0.n_3527.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_0.n_3527.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_10.n_189.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_10.n_189.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_11.n_187.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_11.n_187.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_12.n_183.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_12.n_183.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_13.n_174.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_13.n_174.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_14.n_112.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_14.n_112.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_15.n_72.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_15.n_72.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_16.n_33.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_16.n_33.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_17.n_33.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_17.n_33.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_18.n_29.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_18.n_29.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_1.n_3392.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_1.n_3392.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_2.n_2470.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_2.n_2470.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_3.n_1155.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_3.n_1155.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_4.n_838.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_4.n_838.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_5.n_752.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_5.n_752.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_6.n_658.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_6.n_658.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_7.n_564.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_7.n_564.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_8.n_295.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_8.n_295.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_9.n_231.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_9.n_231.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_0.n_1217.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_0.n_1217.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_10.n_83.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_10.n_83.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_11.n_36.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_11.n_36.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_12.n_32.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_12.n_32.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_1.n_1000.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_1.n_1000.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_2.n_434.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_2.n_434.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_3.n_428.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_3.n_428.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_4.n_371.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_4.n_371.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_5.n_331.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_5.n_331.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_6.n_150.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_6.n_150.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_7.n_121.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_7.n_121.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_8.n_109.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_8.n_109.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_9.n_91.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_9.n_91.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_0.n_3527.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_0.n_3527.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_10.n_189.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_10.n_189.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_11.n_187.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_11.n_187.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_12.n_183.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_12.n_183.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_13.n_174.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_13.n_174.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_14.n_112.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_14.n_112.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_15.n_72.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_15.n_72.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_16.n_33.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_16.n_33.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_17.n_33.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_17.n_33.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_18.n_29.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_18.n_29.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_1.n_3392.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_1.n_3392.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_2.n_2470.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_2.n_2470.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_3.n_1155.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_3.n_1155.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_4.n_838.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_4.n_838.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_5.n_752.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_5.n_752.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_6.n_658.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_6.n_658.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_7.n_564.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_7.n_564.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_8.n_295.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_8.n_295.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_9.n_231.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_9.n_231.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_0.n_1217.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_0.n_1217.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_10.n_83.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_10.n_83.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_11.n_36.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_11.n_36.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_12.n_32.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_12.n_32.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_1.n_1000.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_1.n_1000.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_2.n_434.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_2.n_434.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_3.n_428.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_3.n_428.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_4.n_371.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_4.n_371.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_5.n_331.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_5.n_331.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_6.n_150.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_6.n_150.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_7.n_121.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_7.n_121.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_8.n_109.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_8.n_109.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_9.n_91.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_9.n_91.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_12.n_278.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_12.n_278.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_14.n_136.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_14.n_136.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_1.n_335.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_1.n_335.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_12.n_278.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_12.n_278.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_14.n_136.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_14.n_136.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_1.n_335.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_1.n_335.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_12.n_278.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_12.n_278.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_14.n_136.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_14.n_136.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_1.n_335.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_1.n_335.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_12.n_278.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_12.n_278.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_14.n_136.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_14.n_136.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_1.n_335.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_1.n_335.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_12.n_278.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_12.n_278.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_14.n_136.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_14.n_136.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_1.n_335.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_1.n_335.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_12.n_278.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_12.n_278.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_14.n_136.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_14.n_136.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_1.n_335.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_1.n_335.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_0.n_8199.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_0.n_8199.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_10.n_324.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_10.n_324.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_11.n_286.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_11.n_286.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_12.n_223.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_12.n_223.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_13.n_218.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_13.n_218.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_14.n_212.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_14.n_212.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_15.n_193.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_15.n_193.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_16.n_117.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_16.n_117.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_17.n_68.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_17.n_68.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_18.n_51.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_18.n_51.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_19.n_50.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_19.n_50.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_1.n_5691.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_1.n_5691.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_20.n_44.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_20.n_44.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_21.n_35.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_21.n_35.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_22.n_32.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_22.n_32.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_23.n_26.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_23.n_26.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_24.n_21.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_24.n_21.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_2.n_5459.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_2.n_5459.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_3.n_4524.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_3.n_4524.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_4.n_4169.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_4.n_4169.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_5.n_3056.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_5.n_3056.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_6.n_762.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_6.n_762.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_7.n_644.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_7.n_644.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_8.n_475.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_8.n_475.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_9.n_457.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_9.n_457.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_0.n_7444.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_0.n_7444.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_10.n_494.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_10.n_494.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_11.n_480.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_11.n_480.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_12.n_323.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_12.n_323.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_13.n_254.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_13.n_254.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_14.n_158.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_14.n_158.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_15.n_116.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_15.n_116.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_16.n_96.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_16.n_96.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_17.n_71.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_17.n_71.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_18.n_70.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_18.n_70.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_19.n_62.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_19.n_62.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_1.n_5084.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_1.n_5084.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_20.n_57.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_20.n_57.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_21.n_48.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_21.n_48.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_22.n_24.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_22.n_24.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_23.n_23.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_23.n_23.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_2.n_5078.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_2.n_5078.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_3.n_4167.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_3.n_4167.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_4.n_4057.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_4.n_4057.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_5.n_2801.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_5.n_2801.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_6.n_1068.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_6.n_1068.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_7.n_753.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_7.n_753.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_8.n_689.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_8.n_689.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_9.n_652.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_9.n_652.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_0.n_8199.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_0.n_8199.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_10.n_324.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_10.n_324.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_11.n_286.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_11.n_286.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_12.n_223.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_12.n_223.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_13.n_218.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_13.n_218.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_14.n_212.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_14.n_212.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_15.n_193.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_15.n_193.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_16.n_117.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_16.n_117.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_17.n_68.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_17.n_68.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_18.n_51.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_18.n_51.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_19.n_50.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_19.n_50.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_1.n_5691.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_1.n_5691.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_20.n_44.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_20.n_44.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_21.n_35.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_21.n_35.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_22.n_32.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_22.n_32.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_23.n_26.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_23.n_26.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_24.n_21.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_24.n_21.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_2.n_5459.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_2.n_5459.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_3.n_4524.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_3.n_4524.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_4.n_4169.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_4.n_4169.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_5.n_3056.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_5.n_3056.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_6.n_762.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_6.n_762.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_7.n_644.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_7.n_644.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_8.n_475.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_8.n_475.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_9.n_457.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_9.n_457.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_0.n_7444.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_0.n_7444.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_10.n_494.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_10.n_494.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_11.n_480.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_11.n_480.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_12.n_323.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_12.n_323.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_13.n_254.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_13.n_254.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_14.n_158.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_14.n_158.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_15.n_116.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_15.n_116.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_16.n_96.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_16.n_96.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_17.n_71.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_17.n_71.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_18.n_70.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_18.n_70.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_19.n_62.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_19.n_62.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_1.n_5084.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_1.n_5084.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_20.n_57.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_20.n_57.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_21.n_48.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_21.n_48.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_22.n_24.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_22.n_24.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_23.n_23.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_23.n_23.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_2.n_5078.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_2.n_5078.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_3.n_4167.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_3.n_4167.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_4.n_4057.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_4.n_4057.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_5.n_2801.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_5.n_2801.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_6.n_1068.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_6.n_1068.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_7.n_753.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_7.n_753.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_8.n_689.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_8.n_689.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_9.n_652.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_9.n_652.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_0.n_8199.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_0.n_8199.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_10.n_324.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_10.n_324.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_11.n_286.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_11.n_286.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_12.n_223.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_12.n_223.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_13.n_218.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_13.n_218.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_14.n_212.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_14.n_212.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_15.n_193.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_15.n_193.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_16.n_117.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_16.n_117.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_17.n_68.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_17.n_68.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_18.n_51.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_18.n_51.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_19.n_50.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_19.n_50.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_1.n_5691.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_1.n_5691.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_20.n_44.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_20.n_44.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_21.n_35.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_21.n_35.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_22.n_32.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_22.n_32.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_23.n_26.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_23.n_26.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_24.n_21.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_24.n_21.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_2.n_5459.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_2.n_5459.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_3.n_4524.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_3.n_4524.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_4.n_4169.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_4.n_4169.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_5.n_3056.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_5.n_3056.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_6.n_762.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_6.n_762.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_7.n_644.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_7.n_644.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_8.n_475.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_8.n_475.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_9.n_457.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_9.n_457.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_0.n_7444.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_0.n_7444.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_10.n_494.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_10.n_494.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_11.n_480.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_11.n_480.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_12.n_323.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_12.n_323.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_13.n_254.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_13.n_254.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_14.n_158.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_14.n_158.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_15.n_116.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_15.n_116.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_16.n_96.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_16.n_96.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_17.n_71.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_17.n_71.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_18.n_70.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_18.n_70.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_19.n_62.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_19.n_62.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_1.n_5084.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_1.n_5084.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_20.n_57.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_20.n_57.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_21.n_48.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_21.n_48.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_22.n_24.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_22.n_24.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_23.n_23.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_23.n_23.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_2.n_5078.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_2.n_5078.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_3.n_4167.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_3.n_4167.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_4.n_4057.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_4.n_4057.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_5.n_2801.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_5.n_2801.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_6.n_1068.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_6.n_1068.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_7.n_753.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_7.n_753.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_8.n_689.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_8.n_689.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_9.n_652.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_9.n_652.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_0.n_8199.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_0.n_8199.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_10.n_324.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_10.n_324.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_11.n_286.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_11.n_286.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_12.n_223.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_12.n_223.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_13.n_218.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_13.n_218.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_14.n_212.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_14.n_212.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_15.n_193.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_15.n_193.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_16.n_117.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_16.n_117.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_17.n_68.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_17.n_68.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_18.n_51.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_18.n_51.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_19.n_50.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_19.n_50.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_1.n_5691.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_1.n_5691.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_20.n_44.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_20.n_44.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_21.n_35.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_21.n_35.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_22.n_32.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_22.n_32.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_23.n_26.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_23.n_26.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_24.n_21.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_24.n_21.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_2.n_5459.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_2.n_5459.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_3.n_4524.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_3.n_4524.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_4.n_4169.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_4.n_4169.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_5.n_3056.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_5.n_3056.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_6.n_762.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_6.n_762.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_7.n_644.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_7.n_644.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_8.n_475.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_8.n_475.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_9.n_457.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_9.n_457.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_0.n_7444.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_0.n_7444.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_10.n_494.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_10.n_494.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_11.n_480.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_11.n_480.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_12.n_323.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_12.n_323.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_13.n_254.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_13.n_254.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_14.n_158.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_14.n_158.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_15.n_116.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_15.n_116.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_16.n_96.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_16.n_96.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_17.n_71.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_17.n_71.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_18.n_70.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_18.n_70.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_19.n_62.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_19.n_62.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_1.n_5084.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_1.n_5084.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_20.n_57.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_20.n_57.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_21.n_48.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_21.n_48.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_22.n_24.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_22.n_24.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_23.n_23.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_23.n_23.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_2.n_5078.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_2.n_5078.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_3.n_4167.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_3.n_4167.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_4.n_4057.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_4.n_4057.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_5.n_2801.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_5.n_2801.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_6.n_1068.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_6.n_1068.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_7.n_753.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_7.n_753.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_8.n_689.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_8.n_689.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_9.n_652.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_9.n_652.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_0.n_665.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_0.n_665.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_10.n_104.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_10.n_104.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_11.n_95.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_11.n_95.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_12.n_83.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_12.n_83.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_13.n_80.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_13.n_80.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_14.n_78.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_14.n_78.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_15.n_74.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_15.n_74.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_16.n_70.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_16.n_70.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_17.n_64.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_17.n_64.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_18.n_58.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_18.n_58.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_19.n_49.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_19.n_49.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_1.n_367.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_1.n_367.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_20.n_48.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_20.n_48.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_21.n_45.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_21.n_45.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_22.n_44.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_22.n_44.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_23.n_40.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_23.n_40.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_24.n_37.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_24.n_37.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_25.n_31.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_25.n_31.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_26.n_27.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_26.n_27.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_2.n_237.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_2.n_237.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_3.n_235.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_3.n_235.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_4.n_230.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_4.n_230.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_5.n_145.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_5.n_145.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_6.n_142.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_6.n_142.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_7.n_140.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_7.n_140.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_8.n_132.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_8.n_132.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_9.n_131.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_9.n_131.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_0.n_4621.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_0.n_4621.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_1.n_1496.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_1.n_1496.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_2.n_520.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_2.n_520.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_3.n_279.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_3.n_279.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_4.n_199.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_4.n_199.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_5.n_191.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_5.n_191.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_6.n_64.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_6.n_64.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_7.n_54.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_7.n_54.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_8.n_32.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_8.n_32.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_9.n_21.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_9.n_21.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_0.n_665.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_0.n_665.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_10.n_104.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_10.n_104.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_11.n_95.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_11.n_95.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_12.n_83.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_12.n_83.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_13.n_80.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_13.n_80.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_14.n_78.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_14.n_78.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_15.n_74.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_15.n_74.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_16.n_70.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_16.n_70.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_17.n_64.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_17.n_64.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_18.n_58.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_18.n_58.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_19.n_49.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_19.n_49.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_1.n_367.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_1.n_367.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_20.n_48.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_20.n_48.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_21.n_45.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_21.n_45.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_22.n_44.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_22.n_44.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_23.n_40.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_23.n_40.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_24.n_37.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_24.n_37.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_25.n_31.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_25.n_31.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_26.n_27.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_26.n_27.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_2.n_237.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_2.n_237.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_3.n_235.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_3.n_235.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_4.n_230.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_4.n_230.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_5.n_145.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_5.n_145.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_6.n_142.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_6.n_142.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_7.n_140.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_7.n_140.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_8.n_132.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_8.n_132.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_9.n_131.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_9.n_131.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_0.n_4621.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_0.n_4621.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_1.n_1496.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_1.n_1496.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_2.n_520.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_2.n_520.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_3.n_279.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_3.n_279.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_4.n_199.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_4.n_199.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_5.n_191.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_5.n_191.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_6.n_64.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_6.n_64.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_7.n_54.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_7.n_54.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_8.n_32.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_8.n_32.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_9.n_21.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_9.n_21.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_0.n_8980.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_0.n_8980.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_10.n_46.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_10.n_46.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_1.n_7835.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_1.n_7835.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_2.n_1002.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_2.n_1002.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_3.n_355.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_3.n_355.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_4.n_331.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_4.n_331.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_5.n_307.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_5.n_307.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_6.n_143.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_6.n_143.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_7.n_113.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_7.n_113.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_8.n_91.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_8.n_91.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_9.n_79.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_9.n_79.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_0.n_289.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_0.n_289.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_10.n_48.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_10.n_48.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_11.n_32.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_11.n_32.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_12.n_24.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_12.n_24.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_1.n_153.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_1.n_153.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_2.n_150.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_2.n_150.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_3.n_102.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_3.n_102.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_4.n_96.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_4.n_96.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_5.n_81.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_5.n_81.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_6.n_80.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_6.n_80.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_7.n_66.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_7.n_66.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_8.n_66.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_8.n_66.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_9.n_65.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_9.n_65.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_0.n_8980.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_0.n_8980.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_10.n_46.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_10.n_46.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_1.n_7835.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_1.n_7835.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_2.n_1002.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_2.n_1002.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_3.n_355.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_3.n_355.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_4.n_331.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_4.n_331.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_5.n_307.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_5.n_307.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_6.n_143.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_6.n_143.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_7.n_113.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_7.n_113.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_8.n_91.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_8.n_91.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_9.n_79.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_9.n_79.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_0.n_289.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_0.n_289.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_10.n_48.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_10.n_48.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_11.n_32.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_11.n_32.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_12.n_24.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_12.n_24.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_1.n_153.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_1.n_153.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_2.n_150.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_2.n_150.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_3.n_102.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_3.n_102.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_4.n_96.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_4.n_96.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_5.n_81.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_5.n_81.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_6.n_80.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_6.n_80.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_7.n_66.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_7.n_66.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_8.n_66.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_8.n_66.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_9.n_65.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_9.n_65.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_0.n_6045.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-201-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_0.n_6045.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_10.n_92.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-201-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_10.n_92.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_11.n_59.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-201-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_11.n_59.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_1.n_1064.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-201-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_1.n_1064.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_2.n_523.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-201-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_2.n_523.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_3.n_518.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-201-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_3.n_518.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_4.n_501.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-201-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_4.n_501.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_5.n_372.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-201-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_5.n_372.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_6.n_291.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-201-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_6.n_291.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_7.n_285.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-201-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_7.n_285.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_8.n_213.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-201-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_8.n_213.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_9.n_94.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-201-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_9.n_94.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_0.n_6045.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_0.n_6045.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_10.n_92.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_10.n_92.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_11.n_59.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_11.n_59.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_1.n_1064.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_1.n_1064.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_2.n_523.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_2.n_523.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_3.n_518.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_3.n_518.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_4.n_501.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_4.n_501.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_5.n_372.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_5.n_372.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_6.n_291.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_6.n_291.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_7.n_285.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_7.n_285.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_8.n_213.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_8.n_213.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_9.n_94.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_9.n_94.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_0.n_6045.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_0.n_6045.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_10.n_92.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_10.n_92.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_11.n_59.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_11.n_59.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_1.n_1064.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_1.n_1064.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_2.n_523.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_2.n_523.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_3.n_518.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_3.n_518.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_4.n_501.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_4.n_501.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_5.n_372.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_5.n_372.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_6.n_291.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_6.n_291.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_7.n_285.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_7.n_285.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_8.n_213.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_8.n_213.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_9.n_94.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_9.n_94.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_0.n_5014.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_0.n_5014.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_10.n_248.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_10.n_248.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_11.n_246.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_11.n_246.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_12.n_225.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_12.n_225.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_13.n_215.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_13.n_215.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_14.n_195.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_14.n_195.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_15.n_182.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_15.n_182.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_16.n_168.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_16.n_168.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_17.n_167.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_17.n_167.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_18.n_161.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_18.n_161.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_19.n_158.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_19.n_158.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_1.n_2886.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_1.n_2886.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_20.n_143.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_20.n_143.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_21.n_127.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_21.n_127.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_22.n_119.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_22.n_119.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_23.n_109.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_23.n_109.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_24.n_108.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_24.n_108.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_25.n_103.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_25.n_103.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_26.n_80.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_26.n_80.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_27.n_75.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_27.n_75.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_28.n_65.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_28.n_65.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_29.n_59.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_29.n_59.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_2.n_2373.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_2.n_2373.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_30.n_26.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_30.n_26.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_31.n_20.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_31.n_20.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_3.n_551.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_3.n_551.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_4.n_408.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_4.n_408.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_5.n_391.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_5.n_391.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_6.n_348.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_6.n_348.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_7.n_337.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_7.n_337.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_8.n_303.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_8.n_303.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_9.n_300.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_9.n_300.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_0.n_727.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_0.n_727.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_1.n_362.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_1.n_362.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_2.n_227.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_2.n_227.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_3.n_195.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_3.n_195.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_4.n_159.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_4.n_159.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_5.n_156.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_5.n_156.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_6.n_138.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_6.n_138.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_7.n_96.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_7.n_96.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_8.n_46.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_8.n_46.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_9.n_33.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_9.n_33.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_0.n_573.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_0.n_573.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_10.n_115.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_10.n_115.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_11.n_113.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_11.n_113.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_12.n_112.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_12.n_112.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_13.n_108.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_13.n_108.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_14.n_79.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_14.n_79.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_15.n_77.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_15.n_77.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_16.n_62.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_16.n_62.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_17.n_60.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_17.n_60.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_18.n_42.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_18.n_42.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_19.n_37.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_19.n_37.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_1.n_357.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_1.n_357.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_20.n_32.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_20.n_32.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_21.n_21.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_21.n_21.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_2.n_325.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_2.n_325.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_3.n_291.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_3.n_291.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_4.n_255.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_4.n_255.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_5.n_202.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_5.n_202.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_6.n_166.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_6.n_166.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_7.n_150.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_7.n_150.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_8.n_130.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_8.n_130.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_9.n_117.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_9.n_117.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-201-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-201-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-201-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-203-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-203-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-203-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-206-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-206-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-206-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-220/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-220-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-220/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-220-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-220/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-220-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-221/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-221-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-221/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-221-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-221/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-221-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-208-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-208-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-208-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-210-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-210-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-210-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_0.n_1223.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-201-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_0.n_1223.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_10.n_122.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-201-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_10.n_122.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_11.n_79.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-201-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_11.n_79.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_12.n_57.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-201-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_12.n_57.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_13.n_38.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-201-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_13.n_38.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_14.n_25.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-201-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_14.n_25.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_1.n_506.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-201-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_1.n_506.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_2.n_386.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-201-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_2.n_386.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_3.n_298.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-201-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_3.n_298.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_4.n_284.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-201-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_4.n_284.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_5.n_257.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-201-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_5.n_257.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_6.n_252.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-201-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_6.n_252.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_7.n_241.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-201-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_7.n_241.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_8.n_197.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-201-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_8.n_197.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_9.n_188.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-201-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_9.n_188.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_0.n_1223.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-208-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_0.n_1223.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_10.n_122.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-208-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_10.n_122.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_11.n_79.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-208-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_11.n_79.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_12.n_57.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-208-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_12.n_57.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_13.n_38.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-208-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_13.n_38.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_14.n_25.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-208-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_14.n_25.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_1.n_506.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-208-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_1.n_506.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_2.n_386.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-208-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_2.n_386.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_3.n_298.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-208-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_3.n_298.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_4.n_284.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-208-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_4.n_284.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_5.n_257.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-208-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_5.n_257.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_6.n_252.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-208-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_6.n_252.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_7.n_241.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-208-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_7.n_241.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_8.n_197.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-208-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_8.n_197.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_9.n_188.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-208-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_9.n_188.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_0.n_1223.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-211-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_0.n_1223.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_10.n_122.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-211-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_10.n_122.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_11.n_79.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-211-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_11.n_79.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_12.n_57.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-211-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_12.n_57.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_13.n_38.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-211-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_13.n_38.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_14.n_25.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-211-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_14.n_25.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_1.n_506.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-211-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_1.n_506.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_2.n_386.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-211-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_2.n_386.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_3.n_298.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-211-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_3.n_298.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_4.n_284.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-211-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_4.n_284.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_5.n_257.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-211-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_5.n_257.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_6.n_252.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-211-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_6.n_252.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_7.n_241.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-211-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_7.n_241.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_8.n_197.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-211-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_8.n_197.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_9.n_188.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-211-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_9.n_188.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_0.n_1856.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_0.n_1856.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_10.n_267.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_10.n_267.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_11.n_257.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_11.n_257.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_12.n_72.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_12.n_72.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_13.n_32.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_13.n_32.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_14.n_31.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_14.n_31.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_1.n_1359.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_1.n_1359.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_2.n_1270.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_2.n_1270.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_3.n_1015.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_3.n_1015.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_4.n_847.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_4.n_847.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_5.n_651.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_5.n_651.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_6.n_562.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_6.n_562.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_7.n_537.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_7.n_537.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_8.n_489.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_8.n_489.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_9.n_373.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_9.n_373.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_0.n_1660.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_0.n_1660.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_10.n_35.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_10.n_35.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_11.n_32.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_11.n_32.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_1.n_584.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_1.n_584.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_2.n_245.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_2.n_245.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_3.n_188.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_3.n_188.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_4.n_162.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_4.n_162.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_5.n_126.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_5.n_126.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_6.n_120.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_6.n_120.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_7.n_107.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_7.n_107.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_8.n_66.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_8.n_66.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_9.n_38.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_9.n_38.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_0.n_1856.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_0.n_1856.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_10.n_267.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_10.n_267.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_11.n_257.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_11.n_257.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_12.n_72.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_12.n_72.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_13.n_32.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_13.n_32.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_14.n_31.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_14.n_31.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_1.n_1359.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_1.n_1359.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_2.n_1270.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_2.n_1270.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_3.n_1015.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_3.n_1015.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_4.n_847.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_4.n_847.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_5.n_651.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_5.n_651.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_6.n_562.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_6.n_562.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_7.n_537.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_7.n_537.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_8.n_489.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_8.n_489.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_9.n_373.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_9.n_373.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_0.n_1660.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_0.n_1660.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_10.n_35.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_10.n_35.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_11.n_32.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_11.n_32.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_1.n_584.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_1.n_584.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_2.n_245.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_2.n_245.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_3.n_188.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_3.n_188.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_4.n_162.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_4.n_162.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_5.n_126.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_5.n_126.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_6.n_120.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_6.n_120.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_7.n_107.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_7.n_107.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_8.n_66.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_8.n_66.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_9.n_38.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_9.n_38.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_0.n_1856.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_0.n_1856.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_10.n_267.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_10.n_267.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_11.n_257.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_11.n_257.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_12.n_72.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_12.n_72.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_13.n_32.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_13.n_32.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_14.n_31.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_14.n_31.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_1.n_1359.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_1.n_1359.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_2.n_1270.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_2.n_1270.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_3.n_1015.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_3.n_1015.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_4.n_847.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_4.n_847.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_5.n_651.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_5.n_651.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_6.n_562.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_6.n_562.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_7.n_537.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_7.n_537.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_8.n_489.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_8.n_489.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_9.n_373.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_9.n_373.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_0.n_1660.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_0.n_1660.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_10.n_35.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_10.n_35.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_11.n_32.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_11.n_32.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_1.n_584.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_1.n_584.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_2.n_245.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_2.n_245.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_3.n_188.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_3.n_188.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_4.n_162.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_4.n_162.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_5.n_126.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_5.n_126.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_6.n_120.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_6.n_120.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_7.n_107.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_7.n_107.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_8.n_66.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_8.n_66.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_9.n_38.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_9.n_38.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_0.n_6539.PWM.meme motif-alignments-all-vs-all/KLF4/KLF4-201-vs-KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_0.n_6539.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_1.n_737.PWM.meme motif-alignments-all-vs-all/KLF4/KLF4-201-vs-KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_1.n_737.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_2.n_520.PWM.meme motif-alignments-all-vs-all/KLF4/KLF4-201-vs-KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_2.n_520.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_3.n_512.PWM.meme motif-alignments-all-vs-all/KLF4/KLF4-201-vs-KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_3.n_512.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_4.n_250.PWM.meme motif-alignments-all-vs-all/KLF4/KLF4-201-vs-KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_4.n_250.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_5.n_99.PWM.meme motif-alignments-all-vs-all/KLF4/KLF4-201-vs-KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_5.n_99.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_6.n_68.PWM.meme motif-alignments-all-vs-all/KLF4/KLF4-201-vs-KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_6.n_68.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_7.n_21.PWM.meme motif-alignments-all-vs-all/KLF4/KLF4-201-vs-KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_7.n_21.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_0.n_961.PWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_0.n_961.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_10.n_77.PWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_10.n_77.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_11.n_37.PWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_11.n_37.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_12.n_21.PWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_12.n_21.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_1.n_358.PWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_1.n_358.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_2.n_327.PWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_2.n_327.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_3.n_239.PWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_3.n_239.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_4.n_210.PWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_4.n_210.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_5.n_185.PWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_5.n_185.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_6.n_169.PWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_6.n_169.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_7.n_168.PWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_7.n_168.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_8.n_163.PWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_8.n_163.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_9.n_98.PWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_9.n_98.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_0.n_525.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_0.n_525.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_1.n_380.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_1.n_380.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_2.n_172.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_2.n_172.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_3.n_170.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_3.n_170.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_4.n_165.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_4.n_165.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_5.n_131.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_5.n_131.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_6.n_35.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_6.n_35.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_7.n_26.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_7.n_26.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_0.n_3740.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_0.n_3740.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_10.n_234.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_10.n_234.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_11.n_186.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_11.n_186.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_12.n_182.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_12.n_182.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_13.n_105.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_13.n_105.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_14.n_83.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_14.n_83.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_15.n_47.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_15.n_47.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_16.n_37.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_16.n_37.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_17.n_29.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_17.n_29.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_18.n_27.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_18.n_27.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_1.n_3350.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_1.n_3350.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_2.n_2850.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_2.n_2850.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_3.n_1994.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_3.n_1994.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_4.n_622.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_4.n_622.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_5.n_620.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_5.n_620.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_6.n_387.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_6.n_387.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_7.n_307.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_7.n_307.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_8.n_294.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_8.n_294.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_9.n_255.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_9.n_255.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_0.n_14035.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_0.n_14035.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_1.n_744.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_1.n_744.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_2.n_636.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_2.n_636.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_3.n_462.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_3.n_462.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_4.n_381.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_4.n_381.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_5.n_176.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_5.n_176.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_6.n_105.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_6.n_105.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_7.n_69.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_7.n_69.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_8.n_61.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_8.n_61.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_0.n_1282.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_0.n_1282.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_10.n_196.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_10.n_196.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_11.n_152.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_11.n_152.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_12.n_137.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_12.n_137.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_13.n_114.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_13.n_114.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_14.n_91.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_14.n_91.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_15.n_79.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_15.n_79.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_16.n_46.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_16.n_46.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_1.n_337.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_1.n_337.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_2.n_305.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_2.n_305.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_3.n_301.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_3.n_301.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_4.n_276.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_4.n_276.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_5.n_262.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_5.n_262.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_6.n_237.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_6.n_237.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_7.n_220.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_7.n_220.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_8.n_209.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_8.n_209.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_9.n_198.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_9.n_198.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-MCF-7-ENCSR125ZYC.bestfold.profile.pattern_0.n_16393.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-MCF-7-ENCSR125ZYC.bestfold.profile.pattern_0.n_16393.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-MCF-7-ENCSR125ZYC.bestfold.profile.pattern_1.n_1004.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-MCF-7-ENCSR125ZYC.bestfold.profile.pattern_1.n_1004.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-MCF-7-ENCSR125ZYC.bestfold.profile.pattern_2.n_163.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-MCF-7-ENCSR125ZYC.bestfold.profile.pattern_2.n_163.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-MCF-7-ENCSR125ZYC.bestfold.profile.pattern_3.n_129.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-MCF-7-ENCSR125ZYC.bestfold.profile.pattern_3.n_129.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-MCF-7-ENCSR125ZYC.bestfold.profile.pattern_4.n_104.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-MCF-7-ENCSR125ZYC.bestfold.profile.pattern_4.n_104.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-MCF-7-ENCSR125ZYC.bestfold.profile.pattern_5.n_97.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-MCF-7-ENCSR125ZYC.bestfold.profile.pattern_5.n_97.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_0.n_4571.PWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_0.n_4571.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_10.n_217.PWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_10.n_217.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_11.n_200.PWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_11.n_200.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_12.n_170.PWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_12.n_170.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_13.n_137.PWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_13.n_137.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_14.n_131.PWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_14.n_131.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_15.n_105.PWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_15.n_105.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_16.n_53.PWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_16.n_53.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_17.n_42.PWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_17.n_42.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_18.n_35.PWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_18.n_35.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_19.n_20.PWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_19.n_20.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_1.n_3190.PWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_1.n_3190.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_2.n_2760.PWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_2.n_2760.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_3.n_946.PWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_3.n_946.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_4.n_945.PWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_4.n_945.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_5.n_842.PWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_5.n_842.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_6.n_663.PWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_6.n_663.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_7.n_422.PWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_7.n_422.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_8.n_255.PWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_8.n_255.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_9.n_240.PWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_9.n_240.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_0.n_9855.PWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_0.n_9855.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_10.n_173.PWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_10.n_173.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_11.n_161.PWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_11.n_161.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_12.n_156.PWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_12.n_156.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_13.n_145.PWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_13.n_145.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_14.n_68.PWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_14.n_68.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_15.n_52.PWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_15.n_52.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_16.n_48.PWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_16.n_48.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_17.n_41.PWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_17.n_41.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_18.n_33.PWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_18.n_33.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_19.n_26.PWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_19.n_26.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_1.n_4891.PWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_1.n_4891.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_2.n_4177.PWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_2.n_4177.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_3.n_2075.PWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_3.n_2075.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_4.n_1954.PWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_4.n_1954.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_5.n_626.PWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_5.n_626.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_6.n_343.PWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_6.n_343.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_7.n_264.PWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_7.n_264.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_8.n_218.PWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_8.n_218.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_9.n_203.PWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_9.n_203.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TRERF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_0.n_398.PWM.meme motif-alignments-all-vs-all/TRERF1/TRERF1-201-vs-TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_0.n_398.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TRERF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_1.n_114.PWM.meme motif-alignments-all-vs-all/TRERF1/TRERF1-201-vs-TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_1.n_114.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TRERF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_2.n_108.PWM.meme motif-alignments-all-vs-all/TRERF1/TRERF1-201-vs-TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_2.n_108.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TRERF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_3.n_60.PWM.meme motif-alignments-all-vs-all/TRERF1/TRERF1-201-vs-TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_3.n_60.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TRERF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_4.n_60.PWM.meme motif-alignments-all-vs-all/TRERF1/TRERF1-201-vs-TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_4.n_60.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TRERF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_5.n_52.PWM.meme motif-alignments-all-vs-all/TRERF1/TRERF1-201-vs-TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_5.n_52.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TRERF1-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_0.n_398.PWM.meme motif-alignments-all-vs-all/TRERF1/TRERF1-202-vs-TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_0.n_398.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TRERF1-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_1.n_114.PWM.meme motif-alignments-all-vs-all/TRERF1/TRERF1-202-vs-TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_1.n_114.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TRERF1-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_2.n_108.PWM.meme motif-alignments-all-vs-all/TRERF1/TRERF1-202-vs-TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_2.n_108.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TRERF1-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_3.n_60.PWM.meme motif-alignments-all-vs-all/TRERF1/TRERF1-202-vs-TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_3.n_60.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TRERF1-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_4.n_60.PWM.meme motif-alignments-all-vs-all/TRERF1/TRERF1-202-vs-TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_4.n_60.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TRERF1-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_5.n_52.PWM.meme motif-alignments-all-vs-all/TRERF1/TRERF1-202-vs-TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_5.n_52.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TSHZ1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TSHZ1-HEK293-ENCSR958JPH.bestfold.profile.pattern_0.n_1199.PWM.meme motif-alignments-all-vs-all/TSHZ1/TSHZ1-201-vs-TSHZ1-HEK293-ENCSR958JPH.bestfold.profile.pattern_0.n_1199.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TSHZ1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TSHZ1-HEK293-ENCSR958JPH.bestfold.profile.pattern_1.n_360.PWM.meme motif-alignments-all-vs-all/TSHZ1/TSHZ1-201-vs-TSHZ1-HEK293-ENCSR958JPH.bestfold.profile.pattern_1.n_360.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TSHZ1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TSHZ1-HEK293-ENCSR958JPH.bestfold.profile.pattern_2.n_355.PWM.meme motif-alignments-all-vs-all/TSHZ1/TSHZ1-201-vs-TSHZ1-HEK293-ENCSR958JPH.bestfold.profile.pattern_2.n_355.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TSHZ1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TSHZ1-HEK293-ENCSR958JPH.bestfold.profile.pattern_3.n_304.PWM.meme motif-alignments-all-vs-all/TSHZ1/TSHZ1-201-vs-TSHZ1-HEK293-ENCSR958JPH.bestfold.profile.pattern_3.n_304.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TSHZ1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TSHZ1-HEK293-ENCSR958JPH.bestfold.profile.pattern_4.n_256.PWM.meme motif-alignments-all-vs-all/TSHZ1/TSHZ1-201-vs-TSHZ1-HEK293-ENCSR958JPH.bestfold.profile.pattern_4.n_256.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TSHZ1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TSHZ1-HEK293-ENCSR958JPH.bestfold.profile.pattern_5.n_175.PWM.meme motif-alignments-all-vs-all/TSHZ1/TSHZ1-201-vs-TSHZ1-HEK293-ENCSR958JPH.bestfold.profile.pattern_5.n_175.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TSHZ1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TSHZ1-HEK293-ENCSR958JPH.bestfold.profile.pattern_6.n_110.PWM.meme motif-alignments-all-vs-all/TSHZ1/TSHZ1-201-vs-TSHZ1-HEK293-ENCSR958JPH.bestfold.profile.pattern_6.n_110.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TSHZ1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TSHZ1-HEK293-ENCSR958JPH.bestfold.profile.pattern_7.n_83.PWM.meme motif-alignments-all-vs-all/TSHZ1/TSHZ1-201-vs-TSHZ1-HEK293-ENCSR958JPH.bestfold.profile.pattern_7.n_83.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TSHZ1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TSHZ1-HEK293-ENCSR958JPH.bestfold.profile.pattern_8.n_25.PWM.meme motif-alignments-all-vs-all/TSHZ1/TSHZ1-201-vs-TSHZ1-HEK293-ENCSR958JPH.bestfold.profile.pattern_8.n_25.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TSHZ1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TSHZ1-K562-ENCSR958JPH.bestfold.profile.pattern_0.n_1199.PWM.meme motif-alignments-all-vs-all/TSHZ1/TSHZ1-201-vs-TSHZ1-K562-ENCSR958JPH.bestfold.profile.pattern_0.n_1199.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TSHZ1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TSHZ1-K562-ENCSR958JPH.bestfold.profile.pattern_1.n_360.PWM.meme motif-alignments-all-vs-all/TSHZ1/TSHZ1-201-vs-TSHZ1-K562-ENCSR958JPH.bestfold.profile.pattern_1.n_360.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TSHZ1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TSHZ1-K562-ENCSR958JPH.bestfold.profile.pattern_2.n_355.PWM.meme motif-alignments-all-vs-all/TSHZ1/TSHZ1-201-vs-TSHZ1-K562-ENCSR958JPH.bestfold.profile.pattern_2.n_355.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TSHZ1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TSHZ1-K562-ENCSR958JPH.bestfold.profile.pattern_3.n_304.PWM.meme motif-alignments-all-vs-all/TSHZ1/TSHZ1-201-vs-TSHZ1-K562-ENCSR958JPH.bestfold.profile.pattern_3.n_304.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TSHZ1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TSHZ1-K562-ENCSR958JPH.bestfold.profile.pattern_4.n_256.PWM.meme motif-alignments-all-vs-all/TSHZ1/TSHZ1-201-vs-TSHZ1-K562-ENCSR958JPH.bestfold.profile.pattern_4.n_256.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TSHZ1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TSHZ1-K562-ENCSR958JPH.bestfold.profile.pattern_5.n_175.PWM.meme motif-alignments-all-vs-all/TSHZ1/TSHZ1-201-vs-TSHZ1-K562-ENCSR958JPH.bestfold.profile.pattern_5.n_175.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TSHZ1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TSHZ1-K562-ENCSR958JPH.bestfold.profile.pattern_6.n_110.PWM.meme motif-alignments-all-vs-all/TSHZ1/TSHZ1-201-vs-TSHZ1-K562-ENCSR958JPH.bestfold.profile.pattern_6.n_110.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TSHZ1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TSHZ1-K562-ENCSR958JPH.bestfold.profile.pattern_7.n_83.PWM.meme motif-alignments-all-vs-all/TSHZ1/TSHZ1-201-vs-TSHZ1-K562-ENCSR958JPH.bestfold.profile.pattern_7.n_83.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TSHZ1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TSHZ1-K562-ENCSR958JPH.bestfold.profile.pattern_8.n_25.PWM.meme motif-alignments-all-vs-all/TSHZ1/TSHZ1-201-vs-TSHZ1-K562-ENCSR958JPH.bestfold.profile.pattern_8.n_25.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HEK293-ENCSR773REP.bestfold.profile.pattern_0.n_945.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HEK293-ENCSR773REP.bestfold.profile.pattern_0.n_945.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HEK293-ENCSR773REP.bestfold.profile.pattern_1.n_714.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HEK293-ENCSR773REP.bestfold.profile.pattern_1.n_714.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HEK293-ENCSR773REP.bestfold.profile.pattern_2.n_637.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HEK293-ENCSR773REP.bestfold.profile.pattern_2.n_637.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HEK293-ENCSR773REP.bestfold.profile.pattern_3.n_133.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HEK293-ENCSR773REP.bestfold.profile.pattern_3.n_133.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HEK293-ENCSR773REP.bestfold.profile.pattern_4.n_49.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HEK293-ENCSR773REP.bestfold.profile.pattern_4.n_49.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HEK293-ENCSR773REP.bestfold.profile.pattern_5.n_40.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HEK293-ENCSR773REP.bestfold.profile.pattern_5.n_40.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HEK293-ENCSR773REP.bestfold.profile.pattern_6.n_40.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HEK293-ENCSR773REP.bestfold.profile.pattern_6.n_40.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR000BQA.bestfold.profile.pattern_0.n_7790.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR000BQA.bestfold.profile.pattern_0.n_7790.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR000BQA.bestfold.profile.pattern_1.n_1398.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR000BQA.bestfold.profile.pattern_1.n_1398.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR000BQA.bestfold.profile.pattern_2.n_358.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR000BQA.bestfold.profile.pattern_2.n_358.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR000BQA.bestfold.profile.pattern_3.n_276.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR000BQA.bestfold.profile.pattern_3.n_276.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR000BQA.bestfold.profile.pattern_4.n_160.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR000BQA.bestfold.profile.pattern_4.n_160.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR000BQA.bestfold.profile.pattern_5.n_149.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR000BQA.bestfold.profile.pattern_5.n_149.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR000BQA.bestfold.profile.pattern_6.n_132.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR000BQA.bestfold.profile.pattern_6.n_132.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR000BQA.bestfold.profile.pattern_7.n_84.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR000BQA.bestfold.profile.pattern_7.n_84.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR000BQA.bestfold.profile.pattern_8.n_28.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR000BQA.bestfold.profile.pattern_8.n_28.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_0.n_1996.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_0.n_1996.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_10.n_283.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_10.n_283.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_11.n_279.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_11.n_279.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_12.n_252.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_12.n_252.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_13.n_119.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_13.n_119.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_14.n_102.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_14.n_102.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_15.n_37.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_15.n_37.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_16.n_36.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_16.n_36.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_17.n_31.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_17.n_31.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_18.n_30.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_18.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_19.n_26.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_19.n_26.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_1.n_1102.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_1.n_1102.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_20.n_21.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_20.n_21.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_2.n_845.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_2.n_845.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_3.n_838.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_3.n_838.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_4.n_548.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_4.n_548.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_5.n_525.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_5.n_525.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_6.n_512.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_6.n_512.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_7.n_473.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_7.n_473.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_8.n_341.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_8.n_341.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_9.n_298.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_9.n_298.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_0.n_8887.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_0.n_8887.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_10.n_51.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_10.n_51.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_11.n_24.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_11.n_24.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_12.n_22.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_12.n_22.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_1.n_805.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_1.n_805.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_2.n_782.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_2.n_782.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_3.n_683.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_3.n_683.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_4.n_342.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_4.n_342.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_5.n_279.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_5.n_279.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_6.n_201.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_6.n_201.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_7.n_106.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_7.n_106.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_8.n_58.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_8.n_58.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_9.n_56.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_9.n_56.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_0.n_11687.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_0.n_11687.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_10.n_49.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_10.n_49.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_11.n_39.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_11.n_39.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_12.n_30.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_12.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_1.n_3841.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_1.n_3841.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_2.n_1526.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_2.n_1526.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_3.n_907.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_3.n_907.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_4.n_564.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_4.n_564.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_5.n_415.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_5.n_415.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_6.n_388.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_6.n_388.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_7.n_286.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_7.n_286.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_8.n_203.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_8.n_203.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_9.n_120.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_9.n_120.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_0.n_11128.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_0.n_11128.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_10.n_434.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_10.n_434.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_11.n_433.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_11.n_433.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_12.n_413.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_12.n_413.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_13.n_326.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_13.n_326.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_14.n_261.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_14.n_261.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_15.n_201.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_15.n_201.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_16.n_45.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_16.n_45.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_17.n_29.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_17.n_29.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_18.n_24.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_18.n_24.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_1.n_1450.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_1.n_1450.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_2.n_946.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_2.n_946.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_3.n_913.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_3.n_913.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_4.n_870.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_4.n_870.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_5.n_706.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_5.n_706.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_6.n_672.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_6.n_672.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_7.n_666.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_7.n_666.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_8.n_637.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_8.n_637.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_9.n_442.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_9.n_442.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_0.n_11128.PWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_0.n_11128.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_10.n_434.PWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_10.n_434.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_11.n_433.PWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_11.n_433.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_12.n_413.PWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_12.n_413.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_13.n_326.PWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_13.n_326.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_14.n_261.PWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_14.n_261.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_15.n_201.PWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_15.n_201.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_16.n_45.PWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_16.n_45.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_17.n_29.PWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_17.n_29.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_18.n_24.PWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_18.n_24.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_1.n_1450.PWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_1.n_1450.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_2.n_946.PWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_2.n_946.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_3.n_913.PWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_3.n_913.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_4.n_870.PWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_4.n_870.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_5.n_706.PWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_5.n_706.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_6.n_672.PWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_6.n_672.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_7.n_666.PWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_7.n_666.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_8.n_637.PWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_8.n_637.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_9.n_442.PWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_9.n_442.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_0.n_9417.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_0.n_9417.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_10.n_289.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_10.n_289.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_11.n_187.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_11.n_187.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_12.n_150.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_12.n_150.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_13.n_146.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_13.n_146.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_14.n_138.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_14.n_138.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_15.n_60.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_15.n_60.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_16.n_26.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_16.n_26.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_17.n_23.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_17.n_23.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_1.n_2222.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_1.n_2222.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_2.n_1768.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_2.n_1768.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_3.n_1325.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_3.n_1325.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_4.n_1184.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_4.n_1184.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_5.n_984.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_5.n_984.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_6.n_618.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_6.n_618.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_7.n_601.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_7.n_601.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_8.n_473.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_8.n_473.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_9.n_392.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_9.n_392.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_0.n_10172.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_0.n_10172.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_10.n_63.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_10.n_63.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_11.n_55.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_11.n_55.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_12.n_39.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_12.n_39.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_1.n_5365.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_1.n_5365.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_2.n_4138.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_2.n_4138.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_3.n_2645.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_3.n_2645.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_4.n_2412.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_4.n_2412.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_5.n_1898.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_5.n_1898.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_6.n_1717.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_6.n_1717.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_7.n_1432.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_7.n_1432.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_8.n_917.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_8.n_917.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_9.n_127.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_9.n_127.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_0.n_10172.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_0.n_10172.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_10.n_63.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_10.n_63.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_11.n_55.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_11.n_55.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_12.n_39.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_12.n_39.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_1.n_5365.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_1.n_5365.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_2.n_4138.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_2.n_4138.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_3.n_2645.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_3.n_2645.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_4.n_2412.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_4.n_2412.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_5.n_1898.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_5.n_1898.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_6.n_1717.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_6.n_1717.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_7.n_1432.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_7.n_1432.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_8.n_917.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_8.n_917.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_9.n_127.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_9.n_127.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_0.n_1536.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_0.n_1536.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_10.n_43.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_10.n_43.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_11.n_22.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_11.n_22.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_1.n_720.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_1.n_720.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_2.n_260.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_2.n_260.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_3.n_188.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_3.n_188.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_4.n_122.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_4.n_122.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_5.n_119.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_5.n_119.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_6.n_90.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_6.n_90.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_7.n_85.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_7.n_85.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_8.n_65.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_8.n_65.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_9.n_56.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_9.n_56.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_0.n_982.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_0.n_982.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_10.n_49.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_10.n_49.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_11.n_46.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_11.n_46.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_12.n_45.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_12.n_45.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_13.n_43.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_13.n_43.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_14.n_32.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_14.n_32.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_15.n_22.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_15.n_22.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_1.n_127.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_1.n_127.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_2.n_113.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_2.n_113.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_3.n_100.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_3.n_100.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_4.n_97.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_4.n_97.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_5.n_95.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_5.n_95.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_6.n_81.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_6.n_81.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_7.n_78.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_7.n_78.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_8.n_74.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_8.n_74.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_9.n_59.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_9.n_59.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_0.n_11533.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_0.n_11533.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_10.n_457.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_10.n_457.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_11.n_314.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_11.n_314.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_12.n_272.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_12.n_272.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_13.n_269.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_13.n_269.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_14.n_228.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_14.n_228.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_15.n_224.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_15.n_224.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_16.n_208.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_16.n_208.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_17.n_162.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_17.n_162.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_18.n_128.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_18.n_128.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_19.n_117.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_19.n_117.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_1.n_3137.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_1.n_3137.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_20.n_114.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_20.n_114.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_21.n_113.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_21.n_113.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_22.n_105.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_22.n_105.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_23.n_93.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_23.n_93.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_24.n_90.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_24.n_90.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_25.n_62.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_25.n_62.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_26.n_55.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_26.n_55.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_27.n_53.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_27.n_53.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_28.n_47.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_28.n_47.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_29.n_46.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_29.n_46.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_2.n_3053.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_2.n_3053.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_30.n_44.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_30.n_44.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_31.n_36.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_31.n_36.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_32.n_34.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_32.n_34.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_33.n_32.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_33.n_32.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_34.n_20.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_34.n_20.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_35.n_20.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_35.n_20.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_3.n_1844.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_3.n_1844.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_4.n_1740.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_4.n_1740.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_5.n_1306.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_5.n_1306.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_6.n_734.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_6.n_734.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_7.n_653.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_7.n_653.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_8.n_497.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_8.n_497.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_9.n_461.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_9.n_461.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_0.n_876.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_0.n_876.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_10.n_24.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_10.n_24.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_11.n_21.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_11.n_21.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_1.n_166.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_1.n_166.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_2.n_94.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_2.n_94.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_3.n_59.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_3.n_59.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_4.n_51.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_4.n_51.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_5.n_48.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_5.n_48.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_6.n_46.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_6.n_46.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_7.n_43.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_7.n_43.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_8.n_37.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_8.n_37.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_9.n_37.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_9.n_37.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_0.n_1536.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_0.n_1536.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_10.n_43.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_10.n_43.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_11.n_22.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_11.n_22.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_1.n_720.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_1.n_720.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_2.n_260.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_2.n_260.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_3.n_188.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_3.n_188.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_4.n_122.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_4.n_122.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_5.n_119.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_5.n_119.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_6.n_90.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_6.n_90.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_7.n_85.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_7.n_85.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_8.n_65.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_8.n_65.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_9.n_56.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_9.n_56.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_0.n_982.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_0.n_982.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_10.n_49.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_10.n_49.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_11.n_46.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_11.n_46.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_12.n_45.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_12.n_45.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_13.n_43.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_13.n_43.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_14.n_32.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_14.n_32.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_15.n_22.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_15.n_22.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_1.n_127.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_1.n_127.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_2.n_113.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_2.n_113.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_3.n_100.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_3.n_100.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_4.n_97.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_4.n_97.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_5.n_95.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_5.n_95.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_6.n_81.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_6.n_81.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_7.n_78.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_7.n_78.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_8.n_74.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_8.n_74.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_9.n_59.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_9.n_59.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_0.n_11533.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_0.n_11533.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_10.n_457.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_10.n_457.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_11.n_314.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_11.n_314.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_12.n_272.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_12.n_272.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_13.n_269.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_13.n_269.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_14.n_228.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_14.n_228.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_15.n_224.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_15.n_224.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_16.n_208.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_16.n_208.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_17.n_162.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_17.n_162.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_18.n_128.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_18.n_128.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_19.n_117.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_19.n_117.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_1.n_3137.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_1.n_3137.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_20.n_114.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_20.n_114.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_21.n_113.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_21.n_113.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_22.n_105.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_22.n_105.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_23.n_93.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_23.n_93.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_24.n_90.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_24.n_90.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_25.n_62.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_25.n_62.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_26.n_55.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_26.n_55.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_27.n_53.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_27.n_53.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_28.n_47.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_28.n_47.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_29.n_46.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_29.n_46.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_2.n_3053.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_2.n_3053.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_30.n_44.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_30.n_44.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_31.n_36.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_31.n_36.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_32.n_34.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_32.n_34.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_33.n_32.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_33.n_32.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_34.n_20.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_34.n_20.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_35.n_20.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_35.n_20.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_3.n_1844.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_3.n_1844.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_4.n_1740.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_4.n_1740.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_5.n_1306.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_5.n_1306.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_6.n_734.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_6.n_734.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_7.n_653.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_7.n_653.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_8.n_497.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_8.n_497.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_9.n_461.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_9.n_461.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_0.n_876.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_0.n_876.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_10.n_24.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_10.n_24.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_11.n_21.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_11.n_21.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_1.n_166.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_1.n_166.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_2.n_94.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_2.n_94.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_3.n_59.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_3.n_59.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_4.n_51.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_4.n_51.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_5.n_48.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_5.n_48.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_6.n_46.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_6.n_46.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_7.n_43.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_7.n_43.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_8.n_37.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_8.n_37.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_9.n_37.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_9.n_37.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_0.n_1536.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_0.n_1536.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_10.n_43.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_10.n_43.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_11.n_22.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_11.n_22.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_1.n_720.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_1.n_720.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_2.n_260.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_2.n_260.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_3.n_188.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_3.n_188.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_4.n_122.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_4.n_122.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_5.n_119.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_5.n_119.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_6.n_90.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_6.n_90.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_7.n_85.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_7.n_85.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_8.n_65.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_8.n_65.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_9.n_56.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_9.n_56.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_0.n_982.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_0.n_982.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_10.n_49.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_10.n_49.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_11.n_46.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_11.n_46.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_12.n_45.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_12.n_45.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_13.n_43.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_13.n_43.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_14.n_32.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_14.n_32.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_15.n_22.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_15.n_22.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_1.n_127.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_1.n_127.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_2.n_113.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_2.n_113.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_3.n_100.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_3.n_100.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_4.n_97.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_4.n_97.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_5.n_95.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_5.n_95.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_6.n_81.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_6.n_81.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_7.n_78.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_7.n_78.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_8.n_74.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_8.n_74.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_9.n_59.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_9.n_59.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_0.n_11533.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_0.n_11533.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_10.n_457.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_10.n_457.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_11.n_314.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_11.n_314.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_12.n_272.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_12.n_272.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_13.n_269.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_13.n_269.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_14.n_228.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_14.n_228.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_15.n_224.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_15.n_224.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_16.n_208.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_16.n_208.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_17.n_162.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_17.n_162.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_18.n_128.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_18.n_128.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_19.n_117.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_19.n_117.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_1.n_3137.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_1.n_3137.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_20.n_114.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_20.n_114.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_21.n_113.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_21.n_113.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_22.n_105.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_22.n_105.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_23.n_93.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_23.n_93.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_24.n_90.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_24.n_90.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_25.n_62.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_25.n_62.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_26.n_55.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_26.n_55.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_27.n_53.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_27.n_53.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_28.n_47.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_28.n_47.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_29.n_46.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_29.n_46.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_2.n_3053.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_2.n_3053.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_30.n_44.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_30.n_44.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_31.n_36.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_31.n_36.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_32.n_34.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_32.n_34.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_33.n_32.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_33.n_32.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_34.n_20.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_34.n_20.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_35.n_20.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_35.n_20.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_3.n_1844.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_3.n_1844.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_4.n_1740.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_4.n_1740.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_5.n_1306.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_5.n_1306.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_6.n_734.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_6.n_734.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_7.n_653.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_7.n_653.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_8.n_497.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_8.n_497.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_9.n_461.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_9.n_461.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_0.n_876.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_0.n_876.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_10.n_24.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_10.n_24.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_11.n_21.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_11.n_21.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_1.n_166.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_1.n_166.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_2.n_94.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_2.n_94.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_3.n_59.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_3.n_59.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_4.n_51.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_4.n_51.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_5.n_48.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_5.n_48.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_6.n_46.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_6.n_46.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_7.n_43.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_7.n_43.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_8.n_37.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_8.n_37.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_9.n_37.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_9.n_37.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_0.n_839.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_0.n_839.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_10.n_269.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_10.n_269.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_11.n_263.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_11.n_263.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_12.n_260.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_12.n_260.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_13.n_250.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_13.n_250.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_14.n_248.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_14.n_248.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_15.n_244.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_15.n_244.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_16.n_224.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_16.n_224.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_17.n_218.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_17.n_218.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_18.n_207.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_18.n_207.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_19.n_196.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_19.n_196.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_1.n_597.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_1.n_597.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_20.n_195.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_20.n_195.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_21.n_188.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_21.n_188.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_22.n_186.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_22.n_186.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_23.n_185.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_23.n_185.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_24.n_185.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_24.n_185.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_25.n_182.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_25.n_182.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_26.n_177.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_26.n_177.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_27.n_173.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_27.n_173.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_28.n_168.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_28.n_168.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_29.n_160.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_29.n_160.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_2.n_492.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_2.n_492.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_30.n_149.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_30.n_149.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_31.n_145.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_31.n_145.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_32.n_120.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_32.n_120.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_33.n_106.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_33.n_106.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_34.n_98.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_34.n_98.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_35.n_91.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_35.n_91.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_36.n_69.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_36.n_69.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_3.n_435.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_3.n_435.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_4.n_413.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_4.n_413.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_5.n_352.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_5.n_352.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_6.n_322.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_6.n_322.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_7.n_304.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_7.n_304.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_8.n_298.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_8.n_298.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_9.n_283.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_9.n_283.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_0.n_1451.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_0.n_1451.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_10.n_661.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_10.n_661.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_11.n_617.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_11.n_617.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_12.n_607.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_12.n_607.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_13.n_607.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_13.n_607.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_14.n_590.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_14.n_590.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_15.n_575.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_15.n_575.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_16.n_537.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_16.n_537.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_17.n_490.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_17.n_490.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_18.n_466.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_18.n_466.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_19.n_466.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_19.n_466.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_1.n_922.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_1.n_922.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_20.n_432.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_20.n_432.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_21.n_410.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_21.n_410.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_22.n_386.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_22.n_386.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_23.n_385.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_23.n_385.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_24.n_369.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_24.n_369.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_25.n_342.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_25.n_342.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_26.n_341.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_26.n_341.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_27.n_331.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_27.n_331.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_28.n_328.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_28.n_328.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_29.n_320.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_29.n_320.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_2.n_824.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_2.n_824.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_30.n_270.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_30.n_270.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_31.n_261.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_31.n_261.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_32.n_222.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_32.n_222.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_33.n_76.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_33.n_76.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_34.n_76.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_34.n_76.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_35.n_74.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_35.n_74.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_36.n_68.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_36.n_68.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_37.n_26.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_37.n_26.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_3.n_797.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_3.n_797.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_4.n_787.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_4.n_787.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_5.n_782.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_5.n_782.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_6.n_728.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_6.n_728.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_7.n_707.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_7.n_707.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_8.n_695.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_8.n_695.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_9.n_664.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_9.n_664.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_0.n_2782.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_0.n_2782.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_10.n_174.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_10.n_174.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_11.n_171.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_11.n_171.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_12.n_164.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_12.n_164.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_13.n_157.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_13.n_157.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_14.n_131.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_14.n_131.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_15.n_126.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_15.n_126.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_16.n_124.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_16.n_124.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_17.n_113.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_17.n_113.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_18.n_83.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_18.n_83.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_19.n_80.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_19.n_80.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_1.n_2492.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_1.n_2492.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_20.n_45.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_20.n_45.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_21.n_41.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_21.n_41.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_22.n_30.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_22.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_23.n_28.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_23.n_28.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_24.n_27.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_24.n_27.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_2.n_1716.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_2.n_1716.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_3.n_1235.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_3.n_1235.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_4.n_1139.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_4.n_1139.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_5.n_728.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_5.n_728.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_6.n_399.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_6.n_399.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_7.n_328.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_7.n_328.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_8.n_273.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_8.n_273.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_9.n_212.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_9.n_212.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_0.n_2510.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_0.n_2510.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_10.n_32.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_10.n_32.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_11.n_25.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_11.n_25.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_12.n_22.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_12.n_22.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_13.n_20.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_13.n_20.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_1.n_2293.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_1.n_2293.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_2.n_1090.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_2.n_1090.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_3.n_770.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_3.n_770.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_4.n_313.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_4.n_313.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_5.n_158.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_5.n_158.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_6.n_156.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_6.n_156.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_7.n_90.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_7.n_90.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_8.n_53.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_8.n_53.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_9.n_36.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_9.n_36.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_0.n_2816.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_0.n_2816.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_10.n_33.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_10.n_33.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_11.n_32.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_11.n_32.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_1.n_1772.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_1.n_1772.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_2.n_1422.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_2.n_1422.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_3.n_565.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_3.n_565.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_4.n_206.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_4.n_206.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_5.n_117.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_5.n_117.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_6.n_105.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_6.n_105.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_7.n_68.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_7.n_68.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_8.n_65.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_8.n_65.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_9.n_63.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_9.n_63.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_0.n_2450.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_0.n_2450.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_10.n_62.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_10.n_62.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_11.n_50.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_11.n_50.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_12.n_27.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_12.n_27.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_13.n_24.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_13.n_24.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_14.n_20.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_14.n_20.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_1.n_1269.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_1.n_1269.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_2.n_417.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_2.n_417.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_3.n_321.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_3.n_321.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_4.n_208.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_4.n_208.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_5.n_143.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_5.n_143.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_6.n_113.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_6.n_113.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_7.n_89.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_7.n_89.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_8.n_76.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_8.n_76.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_9.n_69.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_9.n_69.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_0.n_5427.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_0.n_5427.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_10.n_93.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_10.n_93.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_11.n_65.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_11.n_65.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_12.n_61.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_12.n_61.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_13.n_50.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_13.n_50.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_14.n_38.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_14.n_38.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_15.n_30.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_15.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_16.n_23.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_16.n_23.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_17.n_22.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_17.n_22.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_1.n_4828.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_1.n_4828.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_2.n_1837.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_2.n_1837.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_3.n_1575.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_3.n_1575.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_4.n_510.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_4.n_510.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_5.n_304.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_5.n_304.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_6.n_302.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_6.n_302.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_7.n_109.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_7.n_109.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_8.n_103.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_8.n_103.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_9.n_96.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_9.n_96.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_0.n_2228.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_0.n_2228.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_1.n_1059.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_1.n_1059.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_2.n_183.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_2.n_183.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_3.n_182.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_3.n_182.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_4.n_174.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_4.n_174.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_5.n_114.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_5.n_114.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_6.n_30.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_6.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_0.n_5234.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_0.n_5234.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_10.n_133.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_10.n_133.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_11.n_124.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_11.n_124.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_12.n_99.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_12.n_99.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_13.n_72.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_13.n_72.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_14.n_55.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_14.n_55.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_15.n_50.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_15.n_50.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_16.n_44.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_16.n_44.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_17.n_43.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_17.n_43.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_18.n_43.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_18.n_43.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_19.n_42.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_19.n_42.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_1.n_4531.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_1.n_4531.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_20.n_40.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_20.n_40.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_21.n_29.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_21.n_29.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_22.n_28.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_22.n_28.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_23.n_21.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_23.n_21.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_2.n_3835.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_2.n_3835.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_3.n_581.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_3.n_581.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_4.n_350.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_4.n_350.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_5.n_327.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_5.n_327.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_6.n_250.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_6.n_250.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_7.n_245.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_7.n_245.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_8.n_218.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_8.n_218.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_9.n_141.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_9.n_141.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_0.n_1578.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_0.n_1578.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_1.n_930.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_1.n_930.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_2.n_854.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_2.n_854.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_3.n_172.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_3.n_172.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_4.n_170.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_4.n_170.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_5.n_33.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_5.n_33.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_6.n_20.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_6.n_20.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_0.n_2822.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_0.n_2822.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_10.n_286.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_10.n_286.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_11.n_222.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_11.n_222.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_12.n_191.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_12.n_191.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_13.n_173.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_13.n_173.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_14.n_149.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_14.n_149.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_15.n_137.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_15.n_137.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_16.n_119.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_16.n_119.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_17.n_119.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_17.n_119.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_18.n_117.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_18.n_117.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_19.n_92.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_19.n_92.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_1.n_1740.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_1.n_1740.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_20.n_89.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_20.n_89.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_21.n_87.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_21.n_87.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_22.n_66.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_22.n_66.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_23.n_58.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_23.n_58.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_24.n_49.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_24.n_49.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_25.n_21.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_25.n_21.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_2.n_1573.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_2.n_1573.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_3.n_1258.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_3.n_1258.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_4.n_970.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_4.n_970.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_5.n_852.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_5.n_852.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_6.n_679.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_6.n_679.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_7.n_438.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_7.n_438.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_8.n_436.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_8.n_436.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_9.n_313.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_9.n_313.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_0.n_4554.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_0.n_4554.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_10.n_92.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_10.n_92.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_11.n_60.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_11.n_60.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_12.n_59.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_12.n_59.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_13.n_39.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_13.n_39.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_14.n_31.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_14.n_31.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_1.n_3576.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_1.n_3576.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_2.n_515.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_2.n_515.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_3.n_404.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_3.n_404.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_4.n_398.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_4.n_398.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_5.n_260.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_5.n_260.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_6.n_237.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_6.n_237.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_7.n_135.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_7.n_135.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_8.n_108.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_8.n_108.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_9.n_100.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_9.n_100.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000ATM.bestfold.profile.pattern_0.n_1675.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000ATM.bestfold.profile.pattern_0.n_1675.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000ATM.bestfold.profile.pattern_10.n_23.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000ATM.bestfold.profile.pattern_10.n_23.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000ATM.bestfold.profile.pattern_1.n_1673.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000ATM.bestfold.profile.pattern_1.n_1673.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000ATM.bestfold.profile.pattern_2.n_1423.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000ATM.bestfold.profile.pattern_2.n_1423.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000ATM.bestfold.profile.pattern_3.n_1311.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000ATM.bestfold.profile.pattern_3.n_1311.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000ATM.bestfold.profile.pattern_4.n_190.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000ATM.bestfold.profile.pattern_4.n_190.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000ATM.bestfold.profile.pattern_5.n_122.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000ATM.bestfold.profile.pattern_5.n_122.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000ATM.bestfold.profile.pattern_6.n_117.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000ATM.bestfold.profile.pattern_6.n_117.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000ATM.bestfold.profile.pattern_7.n_78.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000ATM.bestfold.profile.pattern_7.n_78.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000ATM.bestfold.profile.pattern_8.n_71.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000ATM.bestfold.profile.pattern_8.n_71.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000ATM.bestfold.profile.pattern_9.n_69.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000ATM.bestfold.profile.pattern_9.n_69.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_0.n_7380.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_0.n_7380.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_10.n_205.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_10.n_205.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_11.n_184.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_11.n_184.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_12.n_104.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_12.n_104.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_13.n_97.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_13.n_97.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_14.n_91.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_14.n_91.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_15.n_81.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_15.n_81.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_16.n_63.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_16.n_63.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_17.n_37.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_17.n_37.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_18.n_28.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_18.n_28.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_19.n_25.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_19.n_25.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_1.n_4770.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_1.n_4770.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_2.n_4398.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_2.n_4398.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_3.n_2181.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_3.n_2181.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_4.n_713.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_4.n_713.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_5.n_674.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_5.n_674.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_6.n_531.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_6.n_531.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_7.n_334.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_7.n_334.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_8.n_315.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_8.n_315.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_9.n_227.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_9.n_227.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_0.n_1302.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_0.n_1302.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_10.n_45.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_10.n_45.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_11.n_42.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_11.n_42.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_12.n_31.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_12.n_31.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_13.n_30.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_13.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_14.n_22.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_14.n_22.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_1.n_865.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_1.n_865.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_2.n_532.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_2.n_532.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_3.n_346.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_3.n_346.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_4.n_137.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_4.n_137.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_5.n_123.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_5.n_123.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_6.n_121.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_6.n_121.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_7.n_80.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_7.n_80.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_8.n_47.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_8.n_47.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_9.n_46.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_9.n_46.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_0.n_15215.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_0.n_15215.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_10.n_70.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_10.n_70.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_11.n_64.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_11.n_64.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_12.n_55.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_12.n_55.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_13.n_45.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_13.n_45.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_14.n_40.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_14.n_40.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_15.n_37.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_15.n_37.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_16.n_36.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_16.n_36.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_1.n_3051.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_1.n_3051.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_2.n_1793.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_2.n_1793.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_3.n_698.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_3.n_698.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_4.n_271.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_4.n_271.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_5.n_270.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_5.n_270.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_6.n_253.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_6.n_253.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_7.n_241.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_7.n_241.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_8.n_133.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_8.n_133.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_9.n_78.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_9.n_78.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_0.n_1746.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_0.n_1746.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_10.n_112.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_10.n_112.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_11.n_99.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_11.n_99.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_12.n_71.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_12.n_71.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_13.n_59.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_13.n_59.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_14.n_56.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_14.n_56.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_15.n_33.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_15.n_33.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_16.n_30.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_16.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_1.n_1627.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_1.n_1627.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_2.n_882.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_2.n_882.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_3.n_818.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_3.n_818.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_4.n_324.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_4.n_324.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_5.n_242.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_5.n_242.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_6.n_223.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_6.n_223.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_7.n_185.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_7.n_185.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_8.n_180.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_8.n_180.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_9.n_130.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_9.n_130.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_0.n_3706.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_0.n_3706.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_10.n_129.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_10.n_129.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_11.n_121.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_11.n_121.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_12.n_40.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_12.n_40.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_13.n_40.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_13.n_40.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_14.n_30.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_14.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_15.n_28.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_15.n_28.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_16.n_25.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_16.n_25.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_17.n_21.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_17.n_21.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_1.n_2391.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_1.n_2391.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_2.n_2230.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_2.n_2230.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_3.n_1836.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_3.n_1836.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_4.n_428.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_4.n_428.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_5.n_237.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_5.n_237.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_6.n_216.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_6.n_216.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_7.n_159.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_7.n_159.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_8.n_156.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_8.n_156.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_9.n_129.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_9.n_129.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_0.n_12988.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_0.n_12988.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_10.n_66.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_10.n_66.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_11.n_56.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_11.n_56.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_12.n_31.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_12.n_31.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_1.n_9869.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_1.n_9869.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_2.n_5863.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_2.n_5863.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_3.n_977.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_3.n_977.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_4.n_893.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_4.n_893.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_5.n_598.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_5.n_598.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_6.n_366.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_6.n_366.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_7.n_169.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_7.n_169.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_8.n_145.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_8.n_145.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_9.n_126.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_9.n_126.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_0.n_1871.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_0.n_1871.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_10.n_26.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_10.n_26.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_1.n_1840.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_1.n_1840.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_2.n_1321.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_2.n_1321.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_3.n_551.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_3.n_551.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_4.n_65.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_4.n_65.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_5.n_60.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_5.n_60.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_6.n_59.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_6.n_59.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_7.n_58.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_7.n_58.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_8.n_38.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_8.n_38.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_9.n_29.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_9.n_29.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_0.n_1755.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_0.n_1755.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_10.n_25.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_10.n_25.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_1.n_1069.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_1.n_1069.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_2.n_991.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_2.n_991.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_3.n_138.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_3.n_138.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_4.n_106.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_4.n_106.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_5.n_74.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_5.n_74.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_6.n_34.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_6.n_34.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_7.n_29.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_7.n_29.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_8.n_27.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_8.n_27.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_9.n_27.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_9.n_27.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_0.n_2840.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_0.n_2840.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_10.n_76.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_10.n_76.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_11.n_60.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_11.n_60.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_12.n_42.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_12.n_42.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_1.n_1291.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_1.n_1291.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_2.n_390.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_2.n_390.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_3.n_274.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_3.n_274.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_4.n_268.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_4.n_268.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_5.n_166.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_5.n_166.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_6.n_145.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_6.n_145.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_7.n_120.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_7.n_120.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_8.n_113.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_8.n_113.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_9.n_93.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_9.n_93.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_0.n_6096.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_0.n_6096.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_10.n_84.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_10.n_84.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_11.n_56.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_11.n_56.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_12.n_52.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_12.n_52.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_13.n_32.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_13.n_32.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_14.n_22.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_14.n_22.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_15.n_20.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_15.n_20.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_1.n_3900.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_1.n_3900.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_2.n_3690.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_2.n_3690.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_3.n_467.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_3.n_467.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_4.n_274.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_4.n_274.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_5.n_167.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_5.n_167.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_6.n_126.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_6.n_126.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_7.n_115.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_7.n_115.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_8.n_96.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_8.n_96.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_9.n_89.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_9.n_89.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_0.n_487.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_0.n_487.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_1.n_92.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_1.n_92.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_2.n_75.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_2.n_75.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_3.n_55.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_3.n_55.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_4.n_37.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_4.n_37.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_5.n_34.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_5.n_34.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_6.n_25.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_6.n_25.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_7.n_21.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_7.n_21.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_0.n_2755.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_0.n_2755.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_10.n_244.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_10.n_244.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_11.n_242.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_11.n_242.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_12.n_166.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_12.n_166.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_13.n_148.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_13.n_148.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_14.n_91.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_14.n_91.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_15.n_89.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_15.n_89.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_16.n_43.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_16.n_43.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_1.n_2128.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_1.n_2128.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_2.n_1361.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_2.n_1361.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_3.n_499.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_3.n_499.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_4.n_489.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_4.n_489.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_5.n_407.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_5.n_407.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_6.n_383.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_6.n_383.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_7.n_368.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_7.n_368.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_8.n_362.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_8.n_362.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_9.n_286.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_9.n_286.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_0.n_487.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_0.n_487.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_1.n_92.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_1.n_92.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_2.n_75.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_2.n_75.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_3.n_55.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_3.n_55.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_4.n_37.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_4.n_37.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_5.n_34.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_5.n_34.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_6.n_25.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_6.n_25.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_7.n_21.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_7.n_21.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_0.n_2755.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_0.n_2755.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_10.n_244.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_10.n_244.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_11.n_242.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_11.n_242.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_12.n_166.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_12.n_166.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_13.n_148.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_13.n_148.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_14.n_91.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_14.n_91.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_15.n_89.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_15.n_89.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_16.n_43.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_16.n_43.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_1.n_2128.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_1.n_2128.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_2.n_1361.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_2.n_1361.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_3.n_499.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_3.n_499.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_4.n_489.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_4.n_489.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_5.n_407.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_5.n_407.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_6.n_383.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_6.n_383.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_7.n_368.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_7.n_368.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_8.n_362.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_8.n_362.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_9.n_286.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_9.n_286.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_0.n_3572.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_0.n_3572.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_10.n_179.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_10.n_179.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_11.n_164.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_11.n_164.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_12.n_157.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_12.n_157.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_13.n_151.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_13.n_151.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_14.n_137.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_14.n_137.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_15.n_91.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_15.n_91.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_16.n_85.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_16.n_85.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_17.n_81.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_17.n_81.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_18.n_80.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_18.n_80.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_19.n_55.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_19.n_55.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_1.n_3467.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_1.n_3467.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_20.n_49.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_20.n_49.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_21.n_25.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_21.n_25.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_2.n_2533.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_2.n_2533.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_3.n_543.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_3.n_543.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_4.n_506.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_4.n_506.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_5.n_479.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_5.n_479.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_6.n_422.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_6.n_422.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_7.n_337.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_7.n_337.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_8.n_306.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_8.n_306.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_9.n_188.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_9.n_188.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SNAI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_0.n_1018.PWM.meme motif-alignments-all-vs-all/SNAI1/SNAI1-201-vs-SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_0.n_1018.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SNAI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_10.n_182.PWM.meme motif-alignments-all-vs-all/SNAI1/SNAI1-201-vs-SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_10.n_182.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SNAI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_11.n_127.PWM.meme motif-alignments-all-vs-all/SNAI1/SNAI1-201-vs-SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_11.n_127.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SNAI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_12.n_73.PWM.meme motif-alignments-all-vs-all/SNAI1/SNAI1-201-vs-SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_12.n_73.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SNAI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_13.n_52.PWM.meme motif-alignments-all-vs-all/SNAI1/SNAI1-201-vs-SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_13.n_52.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SNAI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_14.n_37.PWM.meme motif-alignments-all-vs-all/SNAI1/SNAI1-201-vs-SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_14.n_37.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SNAI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_1.n_894.PWM.meme motif-alignments-all-vs-all/SNAI1/SNAI1-201-vs-SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_1.n_894.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SNAI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_2.n_601.PWM.meme motif-alignments-all-vs-all/SNAI1/SNAI1-201-vs-SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_2.n_601.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SNAI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_3.n_562.PWM.meme motif-alignments-all-vs-all/SNAI1/SNAI1-201-vs-SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_3.n_562.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SNAI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_4.n_296.PWM.meme motif-alignments-all-vs-all/SNAI1/SNAI1-201-vs-SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_4.n_296.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SNAI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_5.n_268.PWM.meme motif-alignments-all-vs-all/SNAI1/SNAI1-201-vs-SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_5.n_268.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SNAI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_6.n_249.PWM.meme motif-alignments-all-vs-all/SNAI1/SNAI1-201-vs-SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_6.n_249.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SNAI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_7.n_247.PWM.meme motif-alignments-all-vs-all/SNAI1/SNAI1-201-vs-SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_7.n_247.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SNAI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_8.n_204.PWM.meme motif-alignments-all-vs-all/SNAI1/SNAI1-201-vs-SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_8.n_204.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SNAI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_9.n_184.PWM.meme motif-alignments-all-vs-all/SNAI1/SNAI1-201-vs-SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_9.n_184.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_0.n_2268.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_0.n_2268.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_10.n_164.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_10.n_164.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_11.n_117.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_11.n_117.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_12.n_32.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_12.n_32.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_13.n_30.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_13.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_14.n_22.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_14.n_22.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_1.n_993.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_1.n_993.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_2.n_870.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_2.n_870.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_3.n_677.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_3.n_677.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_4.n_669.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_4.n_669.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_5.n_460.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_5.n_460.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_6.n_371.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_6.n_371.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_7.n_351.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_7.n_351.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_8.n_330.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_8.n_330.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_9.n_166.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_9.n_166.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_0.n_4065.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_0.n_4065.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_10.n_513.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_10.n_513.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_11.n_482.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_11.n_482.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_12.n_438.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_12.n_438.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_13.n_379.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_13.n_379.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_14.n_288.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_14.n_288.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_15.n_240.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_15.n_240.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_16.n_239.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_16.n_239.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_17.n_221.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_17.n_221.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_18.n_183.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_18.n_183.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_19.n_109.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_19.n_109.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_1.n_3133.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_1.n_3133.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_20.n_79.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_20.n_79.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_21.n_56.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_21.n_56.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_22.n_49.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_22.n_49.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_23.n_27.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_23.n_27.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_24.n_24.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_24.n_24.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_25.n_22.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_25.n_22.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_2.n_2911.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_2.n_2911.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_3.n_2147.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_3.n_2147.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_4.n_1663.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_4.n_1663.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_5.n_1122.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_5.n_1122.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_6.n_849.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_6.n_849.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_7.n_638.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_7.n_638.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_8.n_592.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_8.n_592.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_9.n_564.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_9.n_564.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_0.n_182.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_0.n_182.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_10.n_63.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_10.n_63.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_11.n_62.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_11.n_62.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_12.n_47.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_12.n_47.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_13.n_33.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_13.n_33.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_14.n_30.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_14.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_15.n_29.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_15.n_29.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_1.n_181.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_1.n_181.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_2.n_160.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_2.n_160.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_3.n_144.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_3.n_144.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_4.n_144.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_4.n_144.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_5.n_129.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_5.n_129.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_6.n_117.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_6.n_117.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_7.n_95.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_7.n_95.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_8.n_79.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_8.n_79.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_9.n_78.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_9.n_78.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_0.n_13564.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_0.n_13564.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_10.n_29.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_10.n_29.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_1.n_6428.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_1.n_6428.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_2.n_1253.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_2.n_1253.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_3.n_1194.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_3.n_1194.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_4.n_951.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_4.n_951.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_5.n_114.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_5.n_114.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_6.n_105.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_6.n_105.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_7.n_30.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_7.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_8.n_30.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_8.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_9.n_29.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_9.n_29.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_0.n_2268.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_0.n_2268.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_10.n_164.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_10.n_164.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_11.n_117.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_11.n_117.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_12.n_32.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_12.n_32.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_13.n_30.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_13.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_14.n_22.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_14.n_22.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_1.n_993.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_1.n_993.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_2.n_870.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_2.n_870.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_3.n_677.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_3.n_677.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_4.n_669.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_4.n_669.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_5.n_460.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_5.n_460.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_6.n_371.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_6.n_371.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_7.n_351.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_7.n_351.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_8.n_330.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_8.n_330.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_9.n_166.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_9.n_166.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_0.n_4065.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_0.n_4065.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_10.n_513.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_10.n_513.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_11.n_482.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_11.n_482.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_12.n_438.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_12.n_438.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_13.n_379.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_13.n_379.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_14.n_288.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_14.n_288.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_15.n_240.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_15.n_240.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_16.n_239.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_16.n_239.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_17.n_221.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_17.n_221.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_18.n_183.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_18.n_183.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_19.n_109.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_19.n_109.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_1.n_3133.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_1.n_3133.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_20.n_79.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_20.n_79.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_21.n_56.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_21.n_56.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_22.n_49.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_22.n_49.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_23.n_27.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_23.n_27.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_24.n_24.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_24.n_24.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_25.n_22.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_25.n_22.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_2.n_2911.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_2.n_2911.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_3.n_2147.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_3.n_2147.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_4.n_1663.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_4.n_1663.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_5.n_1122.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_5.n_1122.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_6.n_849.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_6.n_849.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_7.n_638.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_7.n_638.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_8.n_592.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_8.n_592.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_9.n_564.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_9.n_564.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_0.n_182.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_0.n_182.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_10.n_63.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_10.n_63.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_11.n_62.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_11.n_62.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_12.n_47.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_12.n_47.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_13.n_33.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_13.n_33.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_14.n_30.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_14.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_15.n_29.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_15.n_29.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_1.n_181.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_1.n_181.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_2.n_160.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_2.n_160.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_3.n_144.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_3.n_144.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_4.n_144.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_4.n_144.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_5.n_129.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_5.n_129.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_6.n_117.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_6.n_117.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_7.n_95.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_7.n_95.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_8.n_79.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_8.n_79.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_9.n_78.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_9.n_78.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_0.n_13564.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_0.n_13564.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_10.n_29.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_10.n_29.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_1.n_6428.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_1.n_6428.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_2.n_1253.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_2.n_1253.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_3.n_1194.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_3.n_1194.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_4.n_951.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_4.n_951.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_5.n_114.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_5.n_114.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_6.n_105.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_6.n_105.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_7.n_30.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_7.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_8.n_30.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_8.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_9.n_29.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_9.n_29.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_0.n_819.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_0.n_819.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_1.n_812.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_1.n_812.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_2.n_425.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_2.n_425.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_3.n_224.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_3.n_224.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_4.n_197.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_4.n_197.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_5.n_154.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_5.n_154.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_6.n_100.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_6.n_100.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_7.n_32.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_7.n_32.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_8.n_25.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_8.n_25.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_9.n_22.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_9.n_22.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_0.n_230.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_0.n_230.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_10.n_27.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_10.n_27.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_1.n_142.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_1.n_142.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_2.n_139.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_2.n_139.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_3.n_131.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_3.n_131.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_4.n_97.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_4.n_97.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_5.n_93.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_5.n_93.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_6.n_74.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_6.n_74.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_7.n_68.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_7.n_68.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_8.n_53.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_8.n_53.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_9.n_30.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_9.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_0.n_4756.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_0.n_4756.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_1.n_484.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_1.n_484.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_2.n_456.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_2.n_456.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_3.n_359.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_3.n_359.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_4.n_195.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_4.n_195.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_5.n_190.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_5.n_190.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_6.n_131.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_6.n_131.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_7.n_75.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_7.n_75.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_8.n_48.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_8.n_48.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_0.n_537.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_0.n_537.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_1.n_513.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_1.n_513.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_2.n_505.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_2.n_505.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_0.n_819.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_0.n_819.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_1.n_812.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_1.n_812.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_2.n_425.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_2.n_425.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_3.n_224.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_3.n_224.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_4.n_197.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_4.n_197.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_5.n_154.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_5.n_154.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_6.n_100.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_6.n_100.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_7.n_32.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_7.n_32.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_8.n_25.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_8.n_25.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_9.n_22.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_9.n_22.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_0.n_230.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_0.n_230.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_10.n_27.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_10.n_27.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_1.n_142.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_1.n_142.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_2.n_139.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_2.n_139.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_3.n_131.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_3.n_131.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_4.n_97.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_4.n_97.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_5.n_93.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_5.n_93.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_6.n_74.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_6.n_74.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_7.n_68.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_7.n_68.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_8.n_53.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_8.n_53.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_9.n_30.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_9.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_0.n_4756.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_0.n_4756.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_1.n_484.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_1.n_484.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_2.n_456.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_2.n_456.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_3.n_359.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_3.n_359.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_4.n_195.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_4.n_195.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_5.n_190.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_5.n_190.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_6.n_131.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_6.n_131.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_7.n_75.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_7.n_75.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_8.n_48.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_8.n_48.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_0.n_537.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_0.n_537.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_1.n_513.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_1.n_513.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_2.n_505.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_2.n_505.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_0.n_637.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_0.n_637.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_10.n_40.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_10.n_40.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_11.n_33.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_11.n_33.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_12.n_30.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_12.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_1.n_94.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_1.n_94.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_2.n_90.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_2.n_90.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_3.n_89.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_3.n_89.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_4.n_68.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_4.n_68.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_5.n_61.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_5.n_61.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_6.n_60.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_6.n_60.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_7.n_49.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_7.n_49.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_8.n_45.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_8.n_45.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_9.n_42.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_9.n_42.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_0.n_3328.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_0.n_3328.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_10.n_73.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_10.n_73.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_11.n_39.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_11.n_39.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_1.n_2552.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_1.n_2552.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_2.n_2443.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_2.n_2443.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_3.n_840.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_3.n_840.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_4.n_297.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_4.n_297.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_5.n_197.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_5.n_197.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_6.n_153.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_6.n_153.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_7.n_145.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_7.n_145.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_8.n_106.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_8.n_106.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_9.n_88.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_9.n_88.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_0.n_5352.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_0.n_5352.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_10.n_69.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_10.n_69.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_11.n_52.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_11.n_52.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_12.n_48.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_12.n_48.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_13.n_38.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_13.n_38.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_14.n_31.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_14.n_31.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_1.n_2129.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_1.n_2129.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_2.n_1916.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_2.n_1916.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_3.n_1549.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_3.n_1549.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_4.n_396.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_4.n_396.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_5.n_227.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_5.n_227.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_6.n_152.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_6.n_152.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_7.n_114.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_7.n_114.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_8.n_93.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_8.n_93.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_9.n_89.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_9.n_89.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_0.n_637.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_0.n_637.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_10.n_40.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_10.n_40.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_11.n_33.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_11.n_33.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_12.n_30.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_12.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_1.n_94.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_1.n_94.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_2.n_90.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_2.n_90.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_3.n_89.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_3.n_89.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_4.n_68.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_4.n_68.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_5.n_61.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_5.n_61.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_6.n_60.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_6.n_60.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_7.n_49.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_7.n_49.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_8.n_45.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_8.n_45.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_9.n_42.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_9.n_42.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_0.n_3328.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_0.n_3328.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_10.n_73.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_10.n_73.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_11.n_39.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_11.n_39.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_1.n_2552.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_1.n_2552.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_2.n_2443.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_2.n_2443.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_3.n_840.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_3.n_840.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_4.n_297.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_4.n_297.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_5.n_197.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_5.n_197.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_6.n_153.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_6.n_153.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_7.n_145.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_7.n_145.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_8.n_106.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_8.n_106.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_9.n_88.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_9.n_88.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_0.n_5352.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_0.n_5352.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_10.n_69.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_10.n_69.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_11.n_52.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_11.n_52.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_12.n_48.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_12.n_48.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_13.n_38.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_13.n_38.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_14.n_31.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_14.n_31.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_1.n_2129.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_1.n_2129.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_2.n_1916.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_2.n_1916.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_3.n_1549.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_3.n_1549.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_4.n_396.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_4.n_396.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_5.n_227.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_5.n_227.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_6.n_152.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_6.n_152.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_7.n_114.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_7.n_114.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_8.n_93.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_8.n_93.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_9.n_89.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_9.n_89.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_0.n_637.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_0.n_637.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_10.n_40.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_10.n_40.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_11.n_33.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_11.n_33.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_12.n_30.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_12.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_1.n_94.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_1.n_94.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_2.n_90.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_2.n_90.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_3.n_89.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_3.n_89.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_4.n_68.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_4.n_68.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_5.n_61.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_5.n_61.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_6.n_60.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_6.n_60.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_7.n_49.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_7.n_49.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_8.n_45.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_8.n_45.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_9.n_42.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_9.n_42.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_0.n_3328.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_0.n_3328.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_10.n_73.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_10.n_73.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_11.n_39.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_11.n_39.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_1.n_2552.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_1.n_2552.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_2.n_2443.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_2.n_2443.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_3.n_840.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_3.n_840.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_4.n_297.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_4.n_297.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_5.n_197.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_5.n_197.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_6.n_153.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_6.n_153.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_7.n_145.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_7.n_145.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_8.n_106.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_8.n_106.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_9.n_88.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_9.n_88.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_0.n_5352.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_0.n_5352.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_10.n_69.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_10.n_69.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_11.n_52.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_11.n_52.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_12.n_48.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_12.n_48.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_13.n_38.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_13.n_38.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_14.n_31.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_14.n_31.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_1.n_2129.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_1.n_2129.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_2.n_1916.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_2.n_1916.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_3.n_1549.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_3.n_1549.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_4.n_396.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_4.n_396.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_5.n_227.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_5.n_227.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_6.n_152.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_6.n_152.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_7.n_114.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_7.n_114.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_8.n_93.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_8.n_93.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_9.n_89.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_9.n_89.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_0.n_6045.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_0.n_6045.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_10.n_92.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_10.n_92.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_11.n_59.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_11.n_59.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_1.n_1064.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_1.n_1064.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_2.n_523.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_2.n_523.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_3.n_518.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_3.n_518.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_4.n_501.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_4.n_501.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_5.n_372.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_5.n_372.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_6.n_291.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_6.n_291.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_7.n_285.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_7.n_285.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_8.n_213.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_8.n_213.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_9.n_94.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_9.n_94.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_0.n_7550.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_0.n_7550.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_10.n_296.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_10.n_296.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_11.n_208.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_11.n_208.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_12.n_207.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_12.n_207.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_13.n_122.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_13.n_122.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_14.n_116.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_14.n_116.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_15.n_93.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_15.n_93.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_16.n_47.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_16.n_47.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_17.n_39.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_17.n_39.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_18.n_34.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_18.n_34.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_19.n_31.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_19.n_31.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_1.n_4394.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_1.n_4394.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_20.n_31.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_20.n_31.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_21.n_26.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_21.n_26.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_22.n_21.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_22.n_21.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_2.n_2797.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_2.n_2797.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_3.n_2629.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_3.n_2629.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_4.n_1863.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_4.n_1863.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_5.n_989.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_5.n_989.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_6.n_637.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_6.n_637.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_7.n_571.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_7.n_571.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_8.n_412.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_8.n_412.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_9.n_348.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_9.n_348.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_0.n_15287.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_0.n_15287.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_10.n_166.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_10.n_166.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_11.n_76.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_11.n_76.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_12.n_43.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_12.n_43.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_13.n_43.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_13.n_43.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_14.n_36.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_14.n_36.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_15.n_31.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_15.n_31.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_1.n_5805.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_1.n_5805.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_2.n_1566.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_2.n_1566.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_3.n_812.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_3.n_812.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_4.n_739.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_4.n_739.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_5.n_738.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_5.n_738.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_6.n_589.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_6.n_589.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_7.n_527.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_7.n_527.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_8.n_397.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_8.n_397.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_9.n_349.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_9.n_349.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_0.n_3305.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_0.n_3305.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_10.n_30.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_10.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_1.n_2195.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_1.n_2195.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_2.n_1319.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_2.n_1319.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_3.n_839.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_3.n_839.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_4.n_621.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_4.n_621.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_5.n_457.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_5.n_457.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_6.n_322.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_6.n_322.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_7.n_136.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_7.n_136.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_8.n_80.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_8.n_80.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_9.n_67.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_9.n_67.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_0.n_13951.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_0.n_13951.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_10.n_102.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_10.n_102.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_11.n_58.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_11.n_58.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_12.n_48.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_12.n_48.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_13.n_31.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_13.n_31.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_14.n_28.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_14.n_28.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_15.n_22.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_15.n_22.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_1.n_4291.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_1.n_4291.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_2.n_1529.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_2.n_1529.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_3.n_1039.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_3.n_1039.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_4.n_896.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_4.n_896.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_5.n_733.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_5.n_733.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_6.n_610.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_6.n_610.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_7.n_227.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_7.n_227.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_8.n_152.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_8.n_152.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_9.n_116.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_9.n_116.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_0.n_1470.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-201-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_0.n_1470.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_1.n_1000.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-201-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_1.n_1000.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_2.n_923.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-201-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_2.n_923.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_3.n_425.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-201-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_3.n_425.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_4.n_312.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-201-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_4.n_312.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_5.n_305.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-201-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_5.n_305.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_6.n_220.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-201-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_6.n_220.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_7.n_175.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-201-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_7.n_175.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_8.n_90.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-201-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_8.n_90.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_9.n_83.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-201-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_9.n_83.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_0.n_1470.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-206-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_0.n_1470.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_1.n_1000.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-206-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_1.n_1000.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_2.n_923.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-206-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_2.n_923.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_3.n_425.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-206-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_3.n_425.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_4.n_312.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-206-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_4.n_312.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_5.n_305.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-206-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_5.n_305.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_6.n_220.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-206-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_6.n_220.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_7.n_175.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-206-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_7.n_175.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_8.n_90.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-206-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_8.n_90.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_9.n_83.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-206-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_9.n_83.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_0.n_468.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_0.n_468.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_10.n_56.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_10.n_56.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_1.n_399.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_1.n_399.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_2.n_300.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_2.n_300.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_3.n_247.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_3.n_247.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_4.n_171.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_4.n_171.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_5.n_169.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_5.n_169.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_6.n_153.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_6.n_153.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_7.n_97.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_7.n_97.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_8.n_84.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_8.n_84.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_9.n_61.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_9.n_61.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_0.n_592.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_0.n_592.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_10.n_75.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_10.n_75.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_11.n_68.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_11.n_68.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_12.n_55.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_12.n_55.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_13.n_52.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_13.n_52.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_14.n_43.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_14.n_43.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_15.n_36.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_15.n_36.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_16.n_27.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_16.n_27.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_17.n_27.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_17.n_27.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_18.n_24.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_18.n_24.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_1.n_504.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_1.n_504.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_2.n_122.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_2.n_122.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_3.n_111.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_3.n_111.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_4.n_106.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_4.n_106.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_5.n_93.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_5.n_93.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_6.n_91.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_6.n_91.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_7.n_83.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_7.n_83.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_8.n_81.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_8.n_81.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_9.n_79.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_9.n_79.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_0.n_544.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_0.n_544.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_10.n_299.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_10.n_299.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_11.n_275.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_11.n_275.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_12.n_226.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_12.n_226.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_13.n_220.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_13.n_220.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_14.n_183.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_14.n_183.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_15.n_173.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_15.n_173.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_16.n_171.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_16.n_171.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_17.n_148.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_17.n_148.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_18.n_121.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_18.n_121.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_19.n_118.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_19.n_118.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_1.n_463.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_1.n_463.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_20.n_95.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_20.n_95.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_21.n_90.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_21.n_90.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_22.n_65.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_22.n_65.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_23.n_56.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_23.n_56.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_24.n_34.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_24.n_34.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_2.n_448.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_2.n_448.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_3.n_440.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_3.n_440.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_4.n_425.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_4.n_425.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_5.n_411.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_5.n_411.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_6.n_389.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_6.n_389.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_7.n_354.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_7.n_354.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_8.n_318.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_8.n_318.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_9.n_304.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_9.n_304.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/INSM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_0.n_3232.PWM.meme motif-alignments-all-vs-all/INSM2/INSM2-201-vs-INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_0.n_3232.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/INSM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_10.n_184.PWM.meme motif-alignments-all-vs-all/INSM2/INSM2-201-vs-INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_10.n_184.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/INSM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_11.n_122.PWM.meme motif-alignments-all-vs-all/INSM2/INSM2-201-vs-INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_11.n_122.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/INSM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_12.n_113.PWM.meme motif-alignments-all-vs-all/INSM2/INSM2-201-vs-INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_12.n_113.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/INSM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_13.n_63.PWM.meme motif-alignments-all-vs-all/INSM2/INSM2-201-vs-INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_13.n_63.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/INSM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_14.n_43.PWM.meme motif-alignments-all-vs-all/INSM2/INSM2-201-vs-INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_14.n_43.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/INSM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_15.n_23.PWM.meme motif-alignments-all-vs-all/INSM2/INSM2-201-vs-INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_15.n_23.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/INSM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_1.n_2957.PWM.meme motif-alignments-all-vs-all/INSM2/INSM2-201-vs-INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_1.n_2957.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/INSM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_2.n_2026.PWM.meme motif-alignments-all-vs-all/INSM2/INSM2-201-vs-INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_2.n_2026.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/INSM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_3.n_1830.PWM.meme motif-alignments-all-vs-all/INSM2/INSM2-201-vs-INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_3.n_1830.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/INSM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_4.n_774.PWM.meme motif-alignments-all-vs-all/INSM2/INSM2-201-vs-INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_4.n_774.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/INSM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_5.n_565.PWM.meme motif-alignments-all-vs-all/INSM2/INSM2-201-vs-INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_5.n_565.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/INSM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_6.n_480.PWM.meme motif-alignments-all-vs-all/INSM2/INSM2-201-vs-INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_6.n_480.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/INSM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_7.n_467.PWM.meme motif-alignments-all-vs-all/INSM2/INSM2-201-vs-INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_7.n_467.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/INSM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_8.n_293.PWM.meme motif-alignments-all-vs-all/INSM2/INSM2-201-vs-INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_8.n_293.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/INSM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_9.n_231.PWM.meme motif-alignments-all-vs-all/INSM2/INSM2-201-vs-INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_9.n_231.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_0.n_124.PWM.meme motif-alignments-all-vs-all/PRDM9/PRDM9-201-vs-PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_0.n_124.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_1.n_77.PWM.meme motif-alignments-all-vs-all/PRDM9/PRDM9-201-vs-PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_1.n_77.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_2.n_59.PWM.meme motif-alignments-all-vs-all/PRDM9/PRDM9-201-vs-PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_2.n_59.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_3.n_59.PWM.meme motif-alignments-all-vs-all/PRDM9/PRDM9-201-vs-PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_3.n_59.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_4.n_43.PWM.meme motif-alignments-all-vs-all/PRDM9/PRDM9-201-vs-PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_4.n_43.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_5.n_41.PWM.meme motif-alignments-all-vs-all/PRDM9/PRDM9-201-vs-PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_5.n_41.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_6.n_39.PWM.meme motif-alignments-all-vs-all/PRDM9/PRDM9-201-vs-PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_6.n_39.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_7.n_37.PWM.meme motif-alignments-all-vs-all/PRDM9/PRDM9-201-vs-PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_7.n_37.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_8.n_30.PWM.meme motif-alignments-all-vs-all/PRDM9/PRDM9-201-vs-PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_8.n_30.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_0.n_1153.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_0.n_1153.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_10.n_84.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_10.n_84.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_11.n_74.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_11.n_74.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_12.n_58.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_12.n_58.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_13.n_55.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_13.n_55.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_14.n_50.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_14.n_50.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_15.n_48.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_15.n_48.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_16.n_43.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_16.n_43.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_17.n_26.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_17.n_26.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_1.n_906.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_1.n_906.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_2.n_720.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_2.n_720.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_3.n_666.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_3.n_666.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_4.n_325.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_4.n_325.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_5.n_182.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_5.n_182.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_6.n_137.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_6.n_137.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_7.n_121.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_7.n_121.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_8.n_118.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_8.n_118.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_9.n_103.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_9.n_103.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_0.n_1153.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_0.n_1153.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_10.n_84.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_10.n_84.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_11.n_74.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_11.n_74.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_12.n_58.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_12.n_58.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_13.n_55.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_13.n_55.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_14.n_50.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_14.n_50.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_15.n_48.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_15.n_48.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_16.n_43.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_16.n_43.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_17.n_26.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_17.n_26.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_1.n_906.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_1.n_906.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_2.n_720.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_2.n_720.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_3.n_666.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_3.n_666.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_4.n_325.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_4.n_325.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_5.n_182.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_5.n_182.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_6.n_137.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_6.n_137.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_7.n_121.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_7.n_121.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_8.n_118.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_8.n_118.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_9.n_103.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_9.n_103.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_0.n_1153.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_0.n_1153.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_10.n_84.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_10.n_84.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_11.n_74.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_11.n_74.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_12.n_58.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_12.n_58.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_13.n_55.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_13.n_55.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_14.n_50.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_14.n_50.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_15.n_48.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_15.n_48.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_16.n_43.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_16.n_43.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_17.n_26.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_17.n_26.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_1.n_906.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_1.n_906.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_2.n_720.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_2.n_720.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_3.n_666.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_3.n_666.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_4.n_325.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_4.n_325.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_5.n_182.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_5.n_182.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_6.n_137.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_6.n_137.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_7.n_121.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_7.n_121.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_8.n_118.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_8.n_118.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_9.n_103.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_9.n_103.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_0.n_8793.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_0.n_8793.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_10.n_961.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_10.n_961.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_11.n_427.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_11.n_427.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_12.n_417.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_12.n_417.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_13.n_356.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_13.n_356.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_14.n_321.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_14.n_321.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_15.n_320.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_15.n_320.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_16.n_227.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_16.n_227.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_17.n_157.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_17.n_157.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_18.n_143.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_18.n_143.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_19.n_48.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_19.n_48.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_1.n_3261.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_1.n_3261.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_20.n_38.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_20.n_38.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_21.n_29.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_21.n_29.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_2.n_3184.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_2.n_3184.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_3.n_2231.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_3.n_2231.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_4.n_1987.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_4.n_1987.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_5.n_1910.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_5.n_1910.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_6.n_1647.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_6.n_1647.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_7.n_1435.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_7.n_1435.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_8.n_1404.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_8.n_1404.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_9.n_1103.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_9.n_1103.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK314-Hughes_GR_models_PRDM6.bestfold.profile.pattern_0.n_67.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK314-Hughes_GR_models_PRDM6.bestfold.profile.pattern_0.n_67.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK314-Hughes_GR_models_PRDM6.bestfold.profile.pattern_1.n_56.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK314-Hughes_GR_models_PRDM6.bestfold.profile.pattern_1.n_56.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK314-Hughes_GR_models_PRDM6.bestfold.profile.pattern_2.n_50.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK314-Hughes_GR_models_PRDM6.bestfold.profile.pattern_2.n_50.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK314-Hughes_GR_models_PRDM6.bestfold.profile.pattern_3.n_44.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK314-Hughes_GR_models_PRDM6.bestfold.profile.pattern_3.n_44.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK314-Hughes_GR_models_PRDM6.bestfold.profile.pattern_4.n_38.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK314-Hughes_GR_models_PRDM6.bestfold.profile.pattern_4.n_38.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK314-Hughes_GR_models_PRDM6.bestfold.profile.pattern_5.n_38.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK314-Hughes_GR_models_PRDM6.bestfold.profile.pattern_5.n_38.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK314-Hughes_GR_models_PRDM6.bestfold.profile.pattern_6.n_35.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK314-Hughes_GR_models_PRDM6.bestfold.profile.pattern_6.n_35.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK314-Hughes_GR_models_PRDM6.bestfold.profile.pattern_7.n_31.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK314-Hughes_GR_models_PRDM6.bestfold.profile.pattern_7.n_31.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK314-Hughes_GR_models_PRDM6.bestfold.profile.pattern_8.n_25.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK314-Hughes_GR_models_PRDM6.bestfold.profile.pattern_8.n_25.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_0.n_5773.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_0.n_5773.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_10.n_167.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_10.n_167.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_11.n_167.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_11.n_167.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_12.n_98.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_12.n_98.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_13.n_52.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_13.n_52.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_14.n_47.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_14.n_47.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_15.n_32.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_15.n_32.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_16.n_21.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_16.n_21.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_1.n_2418.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_1.n_2418.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_2.n_2364.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_2.n_2364.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_3.n_2033.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_3.n_2033.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_4.n_1366.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_4.n_1366.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_5.n_508.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_5.n_508.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_6.n_348.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_6.n_348.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_7.n_328.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_7.n_328.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_8.n_256.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_8.n_256.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_9.n_212.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_9.n_212.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_0.n_16528.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_0.n_16528.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_10.n_399.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_10.n_399.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_11.n_346.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_11.n_346.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_12.n_344.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_12.n_344.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_13.n_311.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_13.n_311.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_14.n_301.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_14.n_301.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_15.n_276.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_15.n_276.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_16.n_236.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_16.n_236.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_17.n_234.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_17.n_234.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_18.n_217.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_18.n_217.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_19.n_208.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_19.n_208.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_1.n_1242.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_1.n_1242.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_20.n_191.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_20.n_191.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_21.n_129.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_21.n_129.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_22.n_122.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_22.n_122.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_23.n_111.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_23.n_111.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_24.n_73.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_24.n_73.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_25.n_49.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_25.n_49.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_26.n_40.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_26.n_40.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_27.n_29.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_27.n_29.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_2.n_1135.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_2.n_1135.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_3.n_905.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_3.n_905.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_4.n_723.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_4.n_723.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_5.n_631.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_5.n_631.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_6.n_626.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_6.n_626.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_7.n_484.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_7.n_484.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_8.n_466.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_8.n_466.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_9.n_443.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_9.n_443.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_0.n_324.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_0.n_324.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_10.n_135.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_10.n_135.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_11.n_133.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_11.n_133.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_12.n_131.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_12.n_131.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_13.n_123.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_13.n_123.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_14.n_123.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_14.n_123.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_15.n_102.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_15.n_102.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_16.n_97.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_16.n_97.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_17.n_82.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_17.n_82.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_18.n_68.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_18.n_68.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_19.n_63.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_19.n_63.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_1.n_279.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_1.n_279.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_2.n_242.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_2.n_242.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_3.n_220.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_3.n_220.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_4.n_212.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_4.n_212.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_5.n_173.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_5.n_173.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_6.n_164.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_6.n_164.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_7.n_161.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_7.n_161.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_8.n_140.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_8.n_140.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_9.n_136.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_9.n_136.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HeLa-S3-ENCSR000ECY.bestfold.profile.pattern_0.n_3545.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HeLa-S3-ENCSR000ECY.bestfold.profile.pattern_0.n_3545.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HeLa-S3-ENCSR000ECY.bestfold.profile.pattern_1.n_1614.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HeLa-S3-ENCSR000ECY.bestfold.profile.pattern_1.n_1614.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HeLa-S3-ENCSR000ECY.bestfold.profile.pattern_2.n_1247.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HeLa-S3-ENCSR000ECY.bestfold.profile.pattern_2.n_1247.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM2-HEK293-ENCSR714LYA.bestfold.profile.pattern_0.n_465.PWM.meme motif-alignments-all-vs-all/PRDM2/PRDM2-201-vs-PRDM2-HEK293-ENCSR714LYA.bestfold.profile.pattern_0.n_465.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM2-HEK293-ENCSR714LYA.bestfold.profile.pattern_1.n_92.PWM.meme motif-alignments-all-vs-all/PRDM2/PRDM2-201-vs-PRDM2-HEK293-ENCSR714LYA.bestfold.profile.pattern_1.n_92.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM2-HEK293-ENCSR714LYA.bestfold.profile.pattern_2.n_61.PWM.meme motif-alignments-all-vs-all/PRDM2/PRDM2-201-vs-PRDM2-HEK293-ENCSR714LYA.bestfold.profile.pattern_2.n_61.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM2-HEK293-ENCSR714LYA.bestfold.profile.pattern_3.n_59.PWM.meme motif-alignments-all-vs-all/PRDM2/PRDM2-201-vs-PRDM2-HEK293-ENCSR714LYA.bestfold.profile.pattern_3.n_59.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM2-HEK293-ENCSR714LYA.bestfold.profile.pattern_4.n_46.PWM.meme motif-alignments-all-vs-all/PRDM2/PRDM2-201-vs-PRDM2-HEK293-ENCSR714LYA.bestfold.profile.pattern_4.n_46.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM2-HEK293-ENCSR714LYA.bestfold.profile.pattern_5.n_45.PWM.meme motif-alignments-all-vs-all/PRDM2/PRDM2-201-vs-PRDM2-HEK293-ENCSR714LYA.bestfold.profile.pattern_5.n_45.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM2-HEK293-ENCSR714LYA.bestfold.profile.pattern_6.n_25.PWM.meme motif-alignments-all-vs-all/PRDM2/PRDM2-201-vs-PRDM2-HEK293-ENCSR714LYA.bestfold.profile.pattern_6.n_25.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_0.n_15888.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_0.n_15888.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_1.n_131.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_1.n_131.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_2.n_71.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_2.n_71.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_3.n_61.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_3.n_61.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_4.n_44.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_4.n_44.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_5.n_38.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_5.n_38.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_6.n_31.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_6.n_31.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_7.n_26.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_7.n_26.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_8.n_25.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_8.n_25.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_9.n_20.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_9.n_20.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_0.n_1619.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_0.n_1619.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_10.n_669.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_10.n_669.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_11.n_644.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_11.n_644.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_12.n_642.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_12.n_642.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_13.n_634.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_13.n_634.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_14.n_614.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_14.n_614.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_15.n_610.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_15.n_610.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_16.n_597.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_16.n_597.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_17.n_559.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_17.n_559.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_18.n_536.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_18.n_536.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_19.n_529.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_19.n_529.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_1.n_1197.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_1.n_1197.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_20.n_523.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_20.n_523.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_21.n_486.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_21.n_486.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_22.n_482.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_22.n_482.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_23.n_478.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_23.n_478.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_24.n_464.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_24.n_464.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_25.n_454.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_25.n_454.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_26.n_454.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_26.n_454.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_27.n_452.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_27.n_452.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_28.n_450.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_28.n_450.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_29.n_354.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_29.n_354.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_2.n_1118.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_2.n_1118.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_30.n_339.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_30.n_339.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_31.n_338.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_31.n_338.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_32.n_337.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_32.n_337.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_33.n_331.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_33.n_331.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_34.n_328.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_34.n_328.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_35.n_322.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_35.n_322.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_36.n_298.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_36.n_298.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_37.n_295.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_37.n_295.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_38.n_294.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_38.n_294.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_39.n_288.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_39.n_288.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_3.n_989.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_3.n_989.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_40.n_278.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_40.n_278.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_41.n_273.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_41.n_273.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_42.n_270.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_42.n_270.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_43.n_268.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_43.n_268.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_44.n_264.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_44.n_264.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_45.n_250.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_45.n_250.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_46.n_242.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_46.n_242.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_47.n_199.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_47.n_199.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_48.n_198.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_48.n_198.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_49.n_167.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_49.n_167.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_4.n_958.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_4.n_958.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_50.n_162.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_50.n_162.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_51.n_157.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_51.n_157.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_52.n_138.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_52.n_138.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_53.n_37.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_53.n_37.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_5.n_880.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_5.n_880.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_6.n_810.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_6.n_810.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_7.n_687.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_7.n_687.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_8.n_686.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_8.n_686.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_9.n_682.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_9.n_682.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_0.n_4104.PWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_0.n_4104.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_10.n_43.PWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_10.n_43.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_11.n_35.PWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_11.n_35.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_1.n_1183.PWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_1.n_1183.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_2.n_899.PWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_2.n_899.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_3.n_774.PWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_3.n_774.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_4.n_737.PWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_4.n_737.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_5.n_482.PWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_5.n_482.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_6.n_399.PWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_6.n_399.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_7.n_343.PWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_7.n_343.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_8.n_180.PWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_8.n_180.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_9.n_47.PWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_9.n_47.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_0.n_4104.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_0.n_4104.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_10.n_43.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_10.n_43.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_11.n_35.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_11.n_35.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_1.n_1183.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_1.n_1183.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_2.n_899.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_2.n_899.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_3.n_774.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_3.n_774.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_4.n_737.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_4.n_737.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_5.n_482.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_5.n_482.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_6.n_399.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_6.n_399.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_7.n_343.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_7.n_343.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_8.n_180.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_8.n_180.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_9.n_47.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_9.n_47.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_0.n_6531.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_0.n_6531.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_10.n_658.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_10.n_658.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_11.n_607.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_11.n_607.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_12.n_438.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_12.n_438.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_13.n_395.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_13.n_395.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_14.n_362.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_14.n_362.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_15.n_297.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_15.n_297.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_16.n_187.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_16.n_187.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_17.n_158.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_17.n_158.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_18.n_138.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_18.n_138.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_19.n_129.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_19.n_129.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_1.n_5082.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_1.n_5082.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_20.n_72.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_20.n_72.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_21.n_50.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_21.n_50.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_22.n_42.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_22.n_42.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_23.n_35.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_23.n_35.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_24.n_31.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_24.n_31.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_25.n_23.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_25.n_23.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_26.n_23.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_26.n_23.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_27.n_22.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_27.n_22.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_28.n_21.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_28.n_21.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_2.n_4882.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_2.n_4882.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_3.n_4644.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_3.n_4644.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_4.n_3656.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_4.n_3656.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_5.n_3411.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_5.n_3411.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_6.n_1441.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_6.n_1441.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_7.n_1388.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_7.n_1388.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_8.n_1283.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_8.n_1283.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_9.n_821.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_9.n_821.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_0.n_925.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_0.n_925.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_10.n_21.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_10.n_21.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_1.n_226.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_1.n_226.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_2.n_219.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_2.n_219.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_3.n_146.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_3.n_146.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_4.n_123.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_4.n_123.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_5.n_110.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_5.n_110.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_6.n_110.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_6.n_110.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_7.n_70.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_7.n_70.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_8.n_55.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_8.n_55.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_9.n_43.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_9.n_43.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_0.n_4104.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_0.n_4104.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_10.n_43.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_10.n_43.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_11.n_35.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_11.n_35.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_1.n_1183.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_1.n_1183.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_2.n_899.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_2.n_899.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_3.n_774.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_3.n_774.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_4.n_737.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_4.n_737.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_5.n_482.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_5.n_482.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_6.n_399.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_6.n_399.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_7.n_343.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_7.n_343.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_8.n_180.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_8.n_180.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_9.n_47.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_9.n_47.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_0.n_6531.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_0.n_6531.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_10.n_658.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_10.n_658.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_11.n_607.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_11.n_607.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_12.n_438.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_12.n_438.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_13.n_395.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_13.n_395.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_14.n_362.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_14.n_362.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_15.n_297.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_15.n_297.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_16.n_187.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_16.n_187.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_17.n_158.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_17.n_158.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_18.n_138.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_18.n_138.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_19.n_129.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_19.n_129.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_1.n_5082.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_1.n_5082.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_20.n_72.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_20.n_72.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_21.n_50.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_21.n_50.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_22.n_42.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_22.n_42.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_23.n_35.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_23.n_35.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_24.n_31.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_24.n_31.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_25.n_23.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_25.n_23.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_26.n_23.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_26.n_23.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_27.n_22.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_27.n_22.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_28.n_21.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_28.n_21.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_2.n_4882.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_2.n_4882.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_3.n_4644.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_3.n_4644.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_4.n_3656.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_4.n_3656.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_5.n_3411.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_5.n_3411.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_6.n_1441.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_6.n_1441.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_7.n_1388.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_7.n_1388.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_8.n_1283.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_8.n_1283.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_9.n_821.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_9.n_821.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_0.n_925.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_0.n_925.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_10.n_21.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_10.n_21.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_1.n_226.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_1.n_226.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_2.n_219.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_2.n_219.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_3.n_146.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_3.n_146.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_4.n_123.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_4.n_123.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_5.n_110.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_5.n_110.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_6.n_110.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_6.n_110.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_7.n_70.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_7.n_70.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_8.n_55.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_8.n_55.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_9.n_43.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_9.n_43.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_0.n_1881.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_0.n_1881.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_10.n_197.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_10.n_197.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_11.n_186.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_11.n_186.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_12.n_157.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_12.n_157.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_13.n_126.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_13.n_126.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_14.n_119.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_14.n_119.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_15.n_87.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_15.n_87.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_16.n_67.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_16.n_67.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_17.n_66.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_17.n_66.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_18.n_50.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_18.n_50.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_19.n_45.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_19.n_45.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_1.n_1316.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_1.n_1316.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_20.n_44.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_20.n_44.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_21.n_35.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_21.n_35.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_22.n_31.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_22.n_31.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_2.n_1056.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_2.n_1056.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_3.n_697.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_3.n_697.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_4.n_642.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_4.n_642.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_5.n_551.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_5.n_551.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_6.n_498.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_6.n_498.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_7.n_496.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_7.n_496.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_8.n_237.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_8.n_237.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_9.n_222.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_9.n_222.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_0.n_990.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_0.n_990.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_10.n_48.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_10.n_48.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_11.n_42.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_11.n_42.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_12.n_40.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_12.n_40.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_13.n_38.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_13.n_38.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_14.n_20.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_14.n_20.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_1.n_317.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_1.n_317.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_2.n_290.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_2.n_290.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_3.n_180.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_3.n_180.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_4.n_165.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_4.n_165.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_5.n_157.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_5.n_157.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_6.n_107.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_6.n_107.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_7.n_101.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_7.n_101.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_8.n_69.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_8.n_69.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_9.n_50.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_9.n_50.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_0.n_94.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_0.n_94.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_1.n_57.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_1.n_57.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_2.n_36.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_2.n_36.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_3.n_35.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_3.n_35.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_4.n_34.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_4.n_34.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_5.n_31.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_5.n_31.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_6.n_24.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_6.n_24.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_0.n_1810.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_0.n_1810.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_10.n_911.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_10.n_911.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_11.n_902.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_11.n_902.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_12.n_900.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_12.n_900.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_13.n_883.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_13.n_883.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_14.n_855.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_14.n_855.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_15.n_839.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_15.n_839.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_16.n_795.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_16.n_795.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_17.n_786.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_17.n_786.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_18.n_766.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_18.n_766.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_19.n_709.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_19.n_709.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_1.n_1484.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_1.n_1484.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_20.n_673.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_20.n_673.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_21.n_613.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_21.n_613.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_22.n_598.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_22.n_598.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_23.n_594.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_23.n_594.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_24.n_579.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_24.n_579.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_25.n_573.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_25.n_573.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_26.n_545.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_26.n_545.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_27.n_536.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_27.n_536.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_28.n_519.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_28.n_519.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_29.n_517.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_29.n_517.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_2.n_1422.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_2.n_1422.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_30.n_488.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_30.n_488.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_31.n_485.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_31.n_485.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_32.n_479.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_32.n_479.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_33.n_479.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_33.n_479.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_34.n_457.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_34.n_457.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_35.n_454.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_35.n_454.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_36.n_439.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_36.n_439.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_37.n_424.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_37.n_424.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_38.n_406.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_38.n_406.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_39.n_393.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_39.n_393.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_3.n_1136.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_3.n_1136.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_40.n_381.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_40.n_381.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_41.n_366.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_41.n_366.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_42.n_307.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_42.n_307.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_43.n_300.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_43.n_300.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_44.n_278.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_44.n_278.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_45.n_266.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_45.n_266.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_46.n_231.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_46.n_231.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_47.n_219.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_47.n_219.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_4.n_1065.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_4.n_1065.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_5.n_992.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_5.n_992.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_6.n_977.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_6.n_977.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_7.n_959.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_7.n_959.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_8.n_941.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_8.n_941.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_9.n_924.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_9.n_924.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_0.n_94.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_0.n_94.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_1.n_57.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_1.n_57.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_2.n_36.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_2.n_36.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_3.n_35.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_3.n_35.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_4.n_34.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_4.n_34.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_5.n_31.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_5.n_31.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_6.n_24.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_6.n_24.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_0.n_1810.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_0.n_1810.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_10.n_911.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_10.n_911.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_11.n_902.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_11.n_902.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_12.n_900.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_12.n_900.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_13.n_883.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_13.n_883.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_14.n_855.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_14.n_855.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_15.n_839.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_15.n_839.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_16.n_795.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_16.n_795.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_17.n_786.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_17.n_786.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_18.n_766.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_18.n_766.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_19.n_709.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_19.n_709.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_1.n_1484.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_1.n_1484.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_20.n_673.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_20.n_673.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_21.n_613.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_21.n_613.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_22.n_598.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_22.n_598.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_23.n_594.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_23.n_594.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_24.n_579.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_24.n_579.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_25.n_573.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_25.n_573.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_26.n_545.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_26.n_545.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_27.n_536.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_27.n_536.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_28.n_519.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_28.n_519.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_29.n_517.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_29.n_517.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_2.n_1422.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_2.n_1422.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_30.n_488.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_30.n_488.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_31.n_485.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_31.n_485.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_32.n_479.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_32.n_479.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_33.n_479.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_33.n_479.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_34.n_457.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_34.n_457.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_35.n_454.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_35.n_454.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_36.n_439.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_36.n_439.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_37.n_424.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_37.n_424.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_38.n_406.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_38.n_406.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_39.n_393.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_39.n_393.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_3.n_1136.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_3.n_1136.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_40.n_381.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_40.n_381.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_41.n_366.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_41.n_366.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_42.n_307.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_42.n_307.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_43.n_300.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_43.n_300.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_44.n_278.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_44.n_278.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_45.n_266.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_45.n_266.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_46.n_231.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_46.n_231.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_47.n_219.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_47.n_219.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_4.n_1065.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_4.n_1065.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_5.n_992.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_5.n_992.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_6.n_977.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_6.n_977.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_7.n_959.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_7.n_959.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_8.n_941.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_8.n_941.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_9.n_924.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_9.n_924.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_0.n_94.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_0.n_94.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_1.n_57.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_1.n_57.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_2.n_36.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_2.n_36.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_3.n_35.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_3.n_35.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_4.n_34.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_4.n_34.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_5.n_31.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_5.n_31.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_6.n_24.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_6.n_24.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_0.n_1810.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_0.n_1810.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_10.n_911.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_10.n_911.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_11.n_902.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_11.n_902.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_12.n_900.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_12.n_900.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_13.n_883.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_13.n_883.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_14.n_855.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_14.n_855.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_15.n_839.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_15.n_839.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_16.n_795.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_16.n_795.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_17.n_786.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_17.n_786.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_18.n_766.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_18.n_766.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_19.n_709.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_19.n_709.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_1.n_1484.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_1.n_1484.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_20.n_673.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_20.n_673.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_21.n_613.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_21.n_613.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_22.n_598.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_22.n_598.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_23.n_594.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_23.n_594.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_24.n_579.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_24.n_579.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_25.n_573.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_25.n_573.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_26.n_545.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_26.n_545.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_27.n_536.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_27.n_536.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_28.n_519.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_28.n_519.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_29.n_517.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_29.n_517.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_2.n_1422.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_2.n_1422.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_30.n_488.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_30.n_488.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_31.n_485.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_31.n_485.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_32.n_479.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_32.n_479.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_33.n_479.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_33.n_479.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_34.n_457.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_34.n_457.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_35.n_454.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_35.n_454.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_36.n_439.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_36.n_439.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_37.n_424.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_37.n_424.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_38.n_406.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_38.n_406.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_39.n_393.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_39.n_393.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_3.n_1136.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_3.n_1136.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_40.n_381.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_40.n_381.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_41.n_366.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_41.n_366.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_42.n_307.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_42.n_307.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_43.n_300.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_43.n_300.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_44.n_278.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_44.n_278.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_45.n_266.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_45.n_266.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_46.n_231.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_46.n_231.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_47.n_219.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_47.n_219.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_4.n_1065.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_4.n_1065.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_5.n_992.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_5.n_992.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_6.n_977.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_6.n_977.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_7.n_959.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_7.n_959.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_8.n_941.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_8.n_941.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_9.n_924.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_9.n_924.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_0.n_94.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_0.n_94.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_1.n_57.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_1.n_57.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_2.n_36.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_2.n_36.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_3.n_35.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_3.n_35.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_4.n_34.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_4.n_34.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_5.n_31.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_5.n_31.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_6.n_24.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_6.n_24.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_0.n_1810.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_0.n_1810.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_10.n_911.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_10.n_911.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_11.n_902.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_11.n_902.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_12.n_900.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_12.n_900.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_13.n_883.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_13.n_883.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_14.n_855.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_14.n_855.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_15.n_839.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_15.n_839.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_16.n_795.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_16.n_795.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_17.n_786.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_17.n_786.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_18.n_766.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_18.n_766.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_19.n_709.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_19.n_709.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_1.n_1484.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_1.n_1484.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_20.n_673.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_20.n_673.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_21.n_613.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_21.n_613.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_22.n_598.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_22.n_598.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_23.n_594.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_23.n_594.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_24.n_579.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_24.n_579.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_25.n_573.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_25.n_573.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_26.n_545.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_26.n_545.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_27.n_536.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_27.n_536.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_28.n_519.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_28.n_519.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_29.n_517.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_29.n_517.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_2.n_1422.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_2.n_1422.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_30.n_488.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_30.n_488.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_31.n_485.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_31.n_485.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_32.n_479.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_32.n_479.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_33.n_479.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_33.n_479.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_34.n_457.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_34.n_457.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_35.n_454.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_35.n_454.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_36.n_439.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_36.n_439.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_37.n_424.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_37.n_424.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_38.n_406.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_38.n_406.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_39.n_393.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_39.n_393.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_3.n_1136.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_3.n_1136.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_40.n_381.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_40.n_381.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_41.n_366.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_41.n_366.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_42.n_307.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_42.n_307.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_43.n_300.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_43.n_300.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_44.n_278.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_44.n_278.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_45.n_266.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_45.n_266.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_46.n_231.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_46.n_231.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_47.n_219.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_47.n_219.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_4.n_1065.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_4.n_1065.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_5.n_992.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_5.n_992.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_6.n_977.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_6.n_977.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_7.n_959.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_7.n_959.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_8.n_941.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_8.n_941.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_9.n_924.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_9.n_924.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_0.n_94.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_0.n_94.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_1.n_57.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_1.n_57.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_2.n_36.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_2.n_36.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_3.n_35.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_3.n_35.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_4.n_34.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_4.n_34.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_5.n_31.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_5.n_31.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_6.n_24.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_6.n_24.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_0.n_1810.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_0.n_1810.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_10.n_911.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_10.n_911.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_11.n_902.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_11.n_902.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_12.n_900.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_12.n_900.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_13.n_883.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_13.n_883.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_14.n_855.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_14.n_855.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_15.n_839.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_15.n_839.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_16.n_795.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_16.n_795.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_17.n_786.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_17.n_786.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_18.n_766.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_18.n_766.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_19.n_709.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_19.n_709.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_1.n_1484.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_1.n_1484.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_20.n_673.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_20.n_673.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_21.n_613.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_21.n_613.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_22.n_598.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_22.n_598.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_23.n_594.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_23.n_594.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_24.n_579.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_24.n_579.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_25.n_573.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_25.n_573.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_26.n_545.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_26.n_545.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_27.n_536.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_27.n_536.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_28.n_519.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_28.n_519.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_29.n_517.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_29.n_517.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_2.n_1422.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_2.n_1422.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_30.n_488.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_30.n_488.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_31.n_485.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_31.n_485.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_32.n_479.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_32.n_479.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_33.n_479.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_33.n_479.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_34.n_457.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_34.n_457.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_35.n_454.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_35.n_454.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_36.n_439.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_36.n_439.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_37.n_424.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_37.n_424.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_38.n_406.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_38.n_406.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_39.n_393.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_39.n_393.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_3.n_1136.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_3.n_1136.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_40.n_381.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_40.n_381.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_41.n_366.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_41.n_366.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_42.n_307.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_42.n_307.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_43.n_300.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_43.n_300.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_44.n_278.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_44.n_278.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_45.n_266.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_45.n_266.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_46.n_231.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_46.n_231.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_47.n_219.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_47.n_219.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_4.n_1065.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_4.n_1065.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_5.n_992.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_5.n_992.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_6.n_977.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_6.n_977.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_7.n_959.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_7.n_959.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_8.n_941.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_8.n_941.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_9.n_924.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_9.n_924.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_0.n_94.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_0.n_94.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_1.n_57.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_1.n_57.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_2.n_36.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_2.n_36.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_3.n_35.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_3.n_35.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_4.n_34.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_4.n_34.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_5.n_31.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_5.n_31.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_6.n_24.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_6.n_24.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_0.n_1810.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_0.n_1810.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_10.n_911.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_10.n_911.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_11.n_902.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_11.n_902.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_12.n_900.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_12.n_900.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_13.n_883.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_13.n_883.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_14.n_855.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_14.n_855.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_15.n_839.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_15.n_839.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_16.n_795.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_16.n_795.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_17.n_786.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_17.n_786.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_18.n_766.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_18.n_766.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_19.n_709.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_19.n_709.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_1.n_1484.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_1.n_1484.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_20.n_673.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_20.n_673.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_21.n_613.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_21.n_613.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_22.n_598.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_22.n_598.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_23.n_594.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_23.n_594.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_24.n_579.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_24.n_579.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_25.n_573.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_25.n_573.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_26.n_545.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_26.n_545.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_27.n_536.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_27.n_536.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_28.n_519.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_28.n_519.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_29.n_517.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_29.n_517.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_2.n_1422.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_2.n_1422.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_30.n_488.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_30.n_488.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_31.n_485.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_31.n_485.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_32.n_479.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_32.n_479.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_33.n_479.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_33.n_479.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_34.n_457.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_34.n_457.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_35.n_454.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_35.n_454.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_36.n_439.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_36.n_439.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_37.n_424.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_37.n_424.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_38.n_406.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_38.n_406.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_39.n_393.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_39.n_393.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_3.n_1136.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_3.n_1136.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_40.n_381.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_40.n_381.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_41.n_366.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_41.n_366.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_42.n_307.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_42.n_307.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_43.n_300.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_43.n_300.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_44.n_278.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_44.n_278.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_45.n_266.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_45.n_266.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_46.n_231.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_46.n_231.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_47.n_219.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_47.n_219.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_4.n_1065.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_4.n_1065.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_5.n_992.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_5.n_992.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_6.n_977.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_6.n_977.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_7.n_959.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_7.n_959.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_8.n_941.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_8.n_941.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_9.n_924.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_9.n_924.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_0.n_94.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_0.n_94.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_1.n_57.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_1.n_57.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_2.n_36.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_2.n_36.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_3.n_35.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_3.n_35.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_4.n_34.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_4.n_34.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_5.n_31.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_5.n_31.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_6.n_24.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_6.n_24.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_0.n_1810.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_0.n_1810.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_10.n_911.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_10.n_911.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_11.n_902.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_11.n_902.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_12.n_900.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_12.n_900.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_13.n_883.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_13.n_883.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_14.n_855.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_14.n_855.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_15.n_839.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_15.n_839.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_16.n_795.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_16.n_795.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_17.n_786.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_17.n_786.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_18.n_766.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_18.n_766.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_19.n_709.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_19.n_709.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_1.n_1484.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_1.n_1484.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_20.n_673.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_20.n_673.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_21.n_613.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_21.n_613.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_22.n_598.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_22.n_598.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_23.n_594.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_23.n_594.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_24.n_579.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_24.n_579.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_25.n_573.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_25.n_573.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_26.n_545.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_26.n_545.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_27.n_536.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_27.n_536.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_28.n_519.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_28.n_519.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_29.n_517.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_29.n_517.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_2.n_1422.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_2.n_1422.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_30.n_488.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_30.n_488.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_31.n_485.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_31.n_485.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_32.n_479.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_32.n_479.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_33.n_479.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_33.n_479.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_34.n_457.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_34.n_457.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_35.n_454.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_35.n_454.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_36.n_439.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_36.n_439.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_37.n_424.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_37.n_424.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_38.n_406.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_38.n_406.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_39.n_393.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_39.n_393.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_3.n_1136.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_3.n_1136.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_40.n_381.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_40.n_381.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_41.n_366.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_41.n_366.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_42.n_307.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_42.n_307.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_43.n_300.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_43.n_300.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_44.n_278.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_44.n_278.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_45.n_266.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_45.n_266.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_46.n_231.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_46.n_231.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_47.n_219.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_47.n_219.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_4.n_1065.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_4.n_1065.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_5.n_992.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_5.n_992.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_6.n_977.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_6.n_977.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_7.n_959.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_7.n_959.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_8.n_941.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_8.n_941.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_9.n_924.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_9.n_924.PWM.trim_0.25 -bits -trimMOT2 0.25 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RLF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RLF-K562-ENCSR718SDE.bestfold.profile.pattern_0.n_2283.PWM.meme motif-alignments-all-vs-all/RLF/RLF-201-vs-RLF-K562-ENCSR718SDE.bestfold.profile.pattern_0.n_2283.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RLF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RLF-K562-ENCSR718SDE.bestfold.profile.pattern_1.n_412.PWM.meme motif-alignments-all-vs-all/RLF/RLF-201-vs-RLF-K562-ENCSR718SDE.bestfold.profile.pattern_1.n_412.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RLF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RLF-K562-ENCSR718SDE.bestfold.profile.pattern_2.n_392.PWM.meme motif-alignments-all-vs-all/RLF/RLF-201-vs-RLF-K562-ENCSR718SDE.bestfold.profile.pattern_2.n_392.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RLF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RLF-K562-ENCSR718SDE.bestfold.profile.pattern_3.n_379.PWM.meme motif-alignments-all-vs-all/RLF/RLF-201-vs-RLF-K562-ENCSR718SDE.bestfold.profile.pattern_3.n_379.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RLF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RLF-K562-ENCSR718SDE.bestfold.profile.pattern_4.n_270.PWM.meme motif-alignments-all-vs-all/RLF/RLF-201-vs-RLF-K562-ENCSR718SDE.bestfold.profile.pattern_4.n_270.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RLF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RLF-K562-ENCSR718SDE.bestfold.profile.pattern_5.n_206.PWM.meme motif-alignments-all-vs-all/RLF/RLF-201-vs-RLF-K562-ENCSR718SDE.bestfold.profile.pattern_5.n_206.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RLF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RLF-K562-ENCSR718SDE.bestfold.profile.pattern_6.n_193.PWM.meme motif-alignments-all-vs-all/RLF/RLF-201-vs-RLF-K562-ENCSR718SDE.bestfold.profile.pattern_6.n_193.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RLF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RLF-K562-ENCSR718SDE.bestfold.profile.pattern_7.n_149.PWM.meme motif-alignments-all-vs-all/RLF/RLF-201-vs-RLF-K562-ENCSR718SDE.bestfold.profile.pattern_7.n_149.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RLF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RLF-K562-ENCSR718SDE.bestfold.profile.pattern_8.n_82.PWM.meme motif-alignments-all-vs-all/RLF/RLF-201-vs-RLF-K562-ENCSR718SDE.bestfold.profile.pattern_8.n_82.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RLF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RLF-K562-ENCSR718SDE.bestfold.profile.pattern_9.n_20.PWM.meme motif-alignments-all-vs-all/RLF/RLF-201-vs-RLF-K562-ENCSR718SDE.bestfold.profile.pattern_9.n_20.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_0.n_2618.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_0.n_2618.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_10.n_35.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_10.n_35.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_1.n_2597.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_1.n_2597.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_2.n_1307.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_2.n_1307.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_3.n_376.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_3.n_376.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_4.n_320.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_4.n_320.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_5.n_249.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_5.n_249.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_6.n_205.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_6.n_205.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_7.n_198.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_7.n_198.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_8.n_104.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_8.n_104.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_9.n_78.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_9.n_78.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_0.n_1553.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_0.n_1553.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_10.n_22.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_10.n_22.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_1.n_1193.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_1.n_1193.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_2.n_1179.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_2.n_1179.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_3.n_903.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_3.n_903.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_4.n_461.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_4.n_461.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_5.n_224.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_5.n_224.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_6.n_142.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_6.n_142.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_7.n_129.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_7.n_129.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_8.n_125.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_8.n_125.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_9.n_56.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-201-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_9.n_56.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_0.n_2618.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_0.n_2618.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_10.n_35.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_10.n_35.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_1.n_2597.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_1.n_2597.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_2.n_1307.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_2.n_1307.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_3.n_376.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_3.n_376.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_4.n_320.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_4.n_320.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_5.n_249.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_5.n_249.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_6.n_205.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_6.n_205.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_7.n_198.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_7.n_198.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_8.n_104.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_8.n_104.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_9.n_78.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-HepG2-ENCSR621PAN.bestfold.profile.pattern_9.n_78.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_0.n_1553.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_0.n_1553.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_10.n_22.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_10.n_22.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_1.n_1193.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_1.n_1193.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_2.n_1179.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_2.n_1179.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_3.n_903.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_3.n_903.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_4.n_461.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_4.n_461.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_5.n_224.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_5.n_224.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_6.n_142.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_6.n_142.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_7.n_129.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_7.n_129.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_8.n_125.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_8.n_125.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HINFP-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_9.n_56.PWM.meme motif-alignments-all-vs-all/HINFP/HINFP-205-vs-HINFP-K562-ENCSR619GFP.bestfold.profile.pattern_9.n_56.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/YY2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_0.n_5039.PWM.meme motif-alignments-all-vs-all/YY2/YY2-201-vs-YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_0.n_5039.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/YY2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_1.n_596.PWM.meme motif-alignments-all-vs-all/YY2/YY2-201-vs-YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_1.n_596.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/YY2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_2.n_313.PWM.meme motif-alignments-all-vs-all/YY2/YY2-201-vs-YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_2.n_313.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/YY2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_3.n_220.PWM.meme motif-alignments-all-vs-all/YY2/YY2-201-vs-YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_3.n_220.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/YY2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_4.n_198.PWM.meme motif-alignments-all-vs-all/YY2/YY2-201-vs-YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_4.n_198.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/YY2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_5.n_144.PWM.meme motif-alignments-all-vs-all/YY2/YY2-201-vs-YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_5.n_144.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/YY2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_6.n_52.PWM.meme motif-alignments-all-vs-all/YY2/YY2-201-vs-YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_6.n_52.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/YY2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_7.n_44.PWM.meme motif-alignments-all-vs-all/YY2/YY2-201-vs-YY2-HEK293-ENCSR692HSE.bestfold.profile.pattern_7.n_44.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLIS2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_0.n_16134.PWM.meme motif-alignments-all-vs-all/GLIS2/GLIS2-201-vs-GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_0.n_16134.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLIS2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_10.n_22.PWM.meme motif-alignments-all-vs-all/GLIS2/GLIS2-201-vs-GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_10.n_22.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLIS2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_1.n_888.PWM.meme motif-alignments-all-vs-all/GLIS2/GLIS2-201-vs-GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_1.n_888.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLIS2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_2.n_765.PWM.meme motif-alignments-all-vs-all/GLIS2/GLIS2-201-vs-GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_2.n_765.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLIS2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_3.n_629.PWM.meme motif-alignments-all-vs-all/GLIS2/GLIS2-201-vs-GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_3.n_629.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLIS2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_4.n_306.PWM.meme motif-alignments-all-vs-all/GLIS2/GLIS2-201-vs-GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_4.n_306.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLIS2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_5.n_28.PWM.meme motif-alignments-all-vs-all/GLIS2/GLIS2-201-vs-GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_5.n_28.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLIS2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_6.n_25.PWM.meme motif-alignments-all-vs-all/GLIS2/GLIS2-201-vs-GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_6.n_25.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLIS2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_7.n_25.PWM.meme motif-alignments-all-vs-all/GLIS2/GLIS2-201-vs-GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_7.n_25.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLIS2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_8.n_24.PWM.meme motif-alignments-all-vs-all/GLIS2/GLIS2-201-vs-GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_8.n_24.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLIS2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_9.n_23.PWM.meme motif-alignments-all-vs-all/GLIS2/GLIS2-201-vs-GLIS2-HEK293-ENCSR535DIA.bestfold.profile.pattern_9.n_23.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_0.n_24215.PWM.meme motif-alignments-all-vs-all/SCRT2/SCRT2-201-vs-SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_0.n_24215.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_10.n_37.PWM.meme motif-alignments-all-vs-all/SCRT2/SCRT2-201-vs-SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_10.n_37.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_11.n_25.PWM.meme motif-alignments-all-vs-all/SCRT2/SCRT2-201-vs-SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_11.n_25.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_1.n_1059.PWM.meme motif-alignments-all-vs-all/SCRT2/SCRT2-201-vs-SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_1.n_1059.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_2.n_587.PWM.meme motif-alignments-all-vs-all/SCRT2/SCRT2-201-vs-SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_2.n_587.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_3.n_444.PWM.meme motif-alignments-all-vs-all/SCRT2/SCRT2-201-vs-SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_3.n_444.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_4.n_275.PWM.meme motif-alignments-all-vs-all/SCRT2/SCRT2-201-vs-SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_4.n_275.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_5.n_184.PWM.meme motif-alignments-all-vs-all/SCRT2/SCRT2-201-vs-SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_5.n_184.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_6.n_157.PWM.meme motif-alignments-all-vs-all/SCRT2/SCRT2-201-vs-SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_6.n_157.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_7.n_128.PWM.meme motif-alignments-all-vs-all/SCRT2/SCRT2-201-vs-SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_7.n_128.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_8.n_92.PWM.meme motif-alignments-all-vs-all/SCRT2/SCRT2-201-vs-SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_8.n_92.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_9.n_66.PWM.meme motif-alignments-all-vs-all/SCRT2/SCRT2-201-vs-SCRT2-HEK293-ENCSR338DGO.bestfold.profile.pattern_9.n_66.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_0.n_7917.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_0.n_7917.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_10.n_63.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_10.n_63.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_11.n_44.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_11.n_44.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_12.n_30.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_12.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_13.n_23.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_13.n_23.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_1.n_7374.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_1.n_7374.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_2.n_4419.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_2.n_4419.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_3.n_2913.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_3.n_2913.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_4.n_2529.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_4.n_2529.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_5.n_2001.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_5.n_2001.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_6.n_1460.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_6.n_1460.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_7.n_825.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_7.n_825.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_8.n_388.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_8.n_388.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_9.n_70.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_9.n_70.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_0.n_409.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_0.n_409.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_1.n_197.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_1.n_197.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_2.n_121.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_2.n_121.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_3.n_48.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_3.n_48.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_4.n_47.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_4.n_47.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_5.n_42.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_5.n_42.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_6.n_39.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_6.n_39.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_7.n_37.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_7.n_37.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_8.n_34.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_8.n_34.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_9.n_27.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_9.n_27.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_0.n_178.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_0.n_178.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_1.n_139.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_1.n_139.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_2.n_109.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_2.n_109.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_3.n_88.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_3.n_88.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_4.n_75.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_4.n_75.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_5.n_65.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_5.n_65.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_6.n_62.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_6.n_62.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_7.n_39.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_7.n_39.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_8.n_30.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_8.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_9.n_29.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_9.n_29.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_0.n_2026.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_0.n_2026.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_10.n_204.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_10.n_204.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_11.n_148.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_11.n_148.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_12.n_94.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_12.n_94.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_13.n_70.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_13.n_70.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_1.n_1471.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_1.n_1471.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_2.n_1412.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_2.n_1412.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_3.n_1088.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_3.n_1088.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_4.n_632.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_4.n_632.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_5.n_357.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_5.n_357.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_6.n_346.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_6.n_346.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_7.n_328.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_7.n_328.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_8.n_239.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_8.n_239.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_9.n_207.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-201-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_9.n_207.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_0.n_7917.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_0.n_7917.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_10.n_63.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_10.n_63.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_11.n_44.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_11.n_44.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_12.n_30.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_12.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_13.n_23.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_13.n_23.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_1.n_7374.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_1.n_7374.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_2.n_4419.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_2.n_4419.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_3.n_2913.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_3.n_2913.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_4.n_2529.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_4.n_2529.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_5.n_2001.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_5.n_2001.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_6.n_1460.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_6.n_1460.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_7.n_825.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_7.n_825.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_8.n_388.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_8.n_388.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_9.n_70.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_9.n_70.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_0.n_409.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_0.n_409.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_1.n_197.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_1.n_197.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_2.n_121.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_2.n_121.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_3.n_48.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_3.n_48.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_4.n_47.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_4.n_47.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_5.n_42.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_5.n_42.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_6.n_39.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_6.n_39.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_7.n_37.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_7.n_37.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_8.n_34.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_8.n_34.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_9.n_27.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_9.n_27.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_0.n_178.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_0.n_178.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_1.n_139.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_1.n_139.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_2.n_109.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_2.n_109.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_3.n_88.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_3.n_88.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_4.n_75.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_4.n_75.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_5.n_65.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_5.n_65.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_6.n_62.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_6.n_62.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_7.n_39.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_7.n_39.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_8.n_30.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_8.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_9.n_29.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_9.n_29.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_0.n_2026.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_0.n_2026.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_10.n_204.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_10.n_204.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_11.n_148.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_11.n_148.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_12.n_94.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_12.n_94.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_13.n_70.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_13.n_70.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_1.n_1471.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_1.n_1471.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_2.n_1412.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_2.n_1412.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_3.n_1088.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_3.n_1088.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_4.n_632.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_4.n_632.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_5.n_357.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_5.n_357.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_6.n_346.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_6.n_346.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_7.n_328.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_7.n_328.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_8.n_239.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_8.n_239.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_9.n_207.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-204-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_9.n_207.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_0.n_7917.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_0.n_7917.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_10.n_63.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_10.n_63.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_11.n_44.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_11.n_44.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_12.n_30.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_12.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_13.n_23.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_13.n_23.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_1.n_7374.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_1.n_7374.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_2.n_4419.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_2.n_4419.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_3.n_2913.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_3.n_2913.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_4.n_2529.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_4.n_2529.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_5.n_2001.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_5.n_2001.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_6.n_1460.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_6.n_1460.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_7.n_825.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_7.n_825.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_8.n_388.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_8.n_388.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_9.n_70.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_9.n_70.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_0.n_409.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_0.n_409.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_1.n_197.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_1.n_197.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_2.n_121.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_2.n_121.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_3.n_48.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_3.n_48.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_4.n_47.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_4.n_47.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_5.n_42.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_5.n_42.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_6.n_39.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_6.n_39.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_7.n_37.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_7.n_37.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_8.n_34.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_8.n_34.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_9.n_27.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_9.n_27.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_0.n_178.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_0.n_178.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_1.n_139.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_1.n_139.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_2.n_109.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_2.n_109.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_3.n_88.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_3.n_88.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_4.n_75.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_4.n_75.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_5.n_65.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_5.n_65.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_6.n_62.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_6.n_62.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_7.n_39.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_7.n_39.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_8.n_30.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_8.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_9.n_29.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_9.n_29.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_0.n_2026.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_0.n_2026.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_10.n_204.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_10.n_204.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_11.n_148.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_11.n_148.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_12.n_94.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_12.n_94.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_13.n_70.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_13.n_70.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_1.n_1471.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_1.n_1471.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_2.n_1412.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_2.n_1412.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_3.n_1088.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_3.n_1088.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_4.n_632.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_4.n_632.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_5.n_357.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_5.n_357.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_6.n_346.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_6.n_346.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_7.n_328.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_7.n_328.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_8.n_239.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_8.n_239.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_9.n_207.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-206-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_9.n_207.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_0.n_7917.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_0.n_7917.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_10.n_63.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_10.n_63.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_11.n_44.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_11.n_44.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_12.n_30.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_12.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_13.n_23.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_13.n_23.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_1.n_7374.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_1.n_7374.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_2.n_4419.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_2.n_4419.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_3.n_2913.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_3.n_2913.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_4.n_2529.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_4.n_2529.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_5.n_2001.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_5.n_2001.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_6.n_1460.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_6.n_1460.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_7.n_825.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_7.n_825.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_8.n_388.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_8.n_388.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_9.n_70.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-GM12878-ENCSR000BHA.bestfold.profile.pattern_9.n_70.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_0.n_409.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_0.n_409.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_1.n_197.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_1.n_197.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_2.n_121.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_2.n_121.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_3.n_48.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_3.n_48.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_4.n_47.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_4.n_47.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_5.n_42.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_5.n_42.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_6.n_39.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_6.n_39.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_7.n_37.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_7.n_37.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_8.n_34.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_8.n_34.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_9.n_27.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BIP.bestfold.profile.pattern_9.n_27.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_0.n_178.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_0.n_178.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_1.n_139.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_1.n_139.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_2.n_109.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_2.n_109.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_3.n_88.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_3.n_88.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_4.n_75.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_4.n_75.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_5.n_65.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_5.n_65.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_6.n_62.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_6.n_62.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_7.n_39.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_7.n_39.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_8.n_30.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_8.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_9.n_29.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-H1-ENCSR000BMJ.bestfold.profile.pattern_9.n_29.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_0.n_2026.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_0.n_2026.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_10.n_204.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_10.n_204.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_11.n_148.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_11.n_148.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_12.n_94.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_12.n_94.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_13.n_70.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_13.n_70.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_1.n_1471.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_1.n_1471.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_2.n_1412.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_2.n_1412.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_3.n_1088.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_3.n_1088.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_4.n_632.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_4.n_632.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_5.n_357.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_5.n_357.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_6.n_346.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_6.n_346.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_7.n_328.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_7.n_328.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_8.n_239.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_8.n_239.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL11A-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_9.n_207.PWM.meme motif-alignments-all-vs-all/BCL11A/BCL11A-211-vs-BCL11A-HEK293-ENCSR021DJC.bestfold.profile.pattern_9.n_207.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_0.n_1000.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_0.n_1000.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_10.n_168.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_10.n_168.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_11.n_87.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_11.n_87.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_12.n_72.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_12.n_72.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_13.n_66.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_13.n_66.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_14.n_60.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_14.n_60.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_15.n_49.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_15.n_49.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_16.n_45.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_16.n_45.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_17.n_35.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_17.n_35.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_18.n_21.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_18.n_21.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_19.n_21.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_19.n_21.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_1.n_598.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_1.n_598.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_2.n_383.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_2.n_383.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_3.n_364.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_3.n_364.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_4.n_332.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_4.n_332.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_5.n_291.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_5.n_291.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_6.n_241.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_6.n_241.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_7.n_230.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_7.n_230.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_8.n_179.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_8.n_179.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_9.n_172.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-201-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_9.n_172.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_0.n_1000.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_0.n_1000.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_10.n_168.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_10.n_168.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_11.n_87.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_11.n_87.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_12.n_72.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_12.n_72.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_13.n_66.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_13.n_66.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_14.n_60.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_14.n_60.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_15.n_49.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_15.n_49.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_16.n_45.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_16.n_45.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_17.n_35.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_17.n_35.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_18.n_21.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_18.n_21.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_19.n_21.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_19.n_21.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_1.n_598.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_1.n_598.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_2.n_383.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_2.n_383.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_3.n_364.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_3.n_364.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_4.n_332.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_4.n_332.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_5.n_291.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_5.n_291.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_6.n_241.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_6.n_241.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_7.n_230.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_7.n_230.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_8.n_179.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_8.n_179.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_9.n_172.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-209-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_9.n_172.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_0.n_1000.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_0.n_1000.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_10.n_168.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_10.n_168.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_11.n_87.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_11.n_87.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_12.n_72.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_12.n_72.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_13.n_66.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_13.n_66.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_14.n_60.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_14.n_60.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_15.n_49.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_15.n_49.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_16.n_45.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_16.n_45.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_17.n_35.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_17.n_35.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_18.n_21.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_18.n_21.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_19.n_21.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_19.n_21.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_1.n_598.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_1.n_598.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_2.n_383.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_2.n_383.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_3.n_364.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_3.n_364.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_4.n_332.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_4.n_332.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_5.n_291.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_5.n_291.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_6.n_241.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_6.n_241.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_7.n_230.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_7.n_230.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_8.n_179.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_8.n_179.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_9.n_172.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-210-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_9.n_172.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_0.n_1000.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_0.n_1000.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_10.n_168.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_10.n_168.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_11.n_87.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_11.n_87.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_12.n_72.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_12.n_72.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_13.n_66.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_13.n_66.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_14.n_60.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_14.n_60.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_15.n_49.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_15.n_49.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_16.n_45.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_16.n_45.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_17.n_35.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_17.n_35.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_18.n_21.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_18.n_21.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_19.n_21.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_19.n_21.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_1.n_598.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_1.n_598.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_2.n_383.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_2.n_383.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_3.n_364.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_3.n_364.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_4.n_332.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_4.n_332.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_5.n_291.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_5.n_291.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_6.n_241.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_6.n_241.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_7.n_230.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_7.n_230.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_8.n_179.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_8.n_179.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_9.n_172.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-203-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_9.n_172.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_0.n_1000.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_0.n_1000.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_10.n_168.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_10.n_168.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_11.n_87.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_11.n_87.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_12.n_72.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_12.n_72.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_13.n_66.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_13.n_66.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_14.n_60.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_14.n_60.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_15.n_49.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_15.n_49.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_16.n_45.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_16.n_45.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_17.n_35.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_17.n_35.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_18.n_21.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_18.n_21.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_19.n_21.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_19.n_21.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_1.n_598.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_1.n_598.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_2.n_383.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_2.n_383.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_3.n_364.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_3.n_364.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_4.n_332.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_4.n_332.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_5.n_291.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_5.n_291.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_6.n_241.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_6.n_241.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_7.n_230.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_7.n_230.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_8.n_179.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_8.n_179.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WIZ-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_9.n_172.PWM.meme motif-alignments-all-vs-all/WIZ/WIZ-204-vs-WIZ-HepG2-ENCSR434ZNS.bestfold.profile.pattern_9.n_172.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-22Rv1-ENCSR246MLJ.bestfold.profile.pattern_0.n_27.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-22Rv1-ENCSR246MLJ.bestfold.profile.pattern_0.n_27.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-22Rv1-ENCSR246MLJ.bestfold.profile.pattern_1.n_23.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-22Rv1-ENCSR246MLJ.bestfold.profile.pattern_1.n_23.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-22Rv1-ENCSR246MLJ.bestfold.profile.pattern_2.n_22.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-22Rv1-ENCSR246MLJ.bestfold.profile.pattern_2.n_22.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-22Rv1-ENCSR246MLJ.bestfold.profile.pattern_3.n_21.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-22Rv1-ENCSR246MLJ.bestfold.profile.pattern_3.n_21.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-22Rv1-ENCSR246MLJ.bestfold.profile.pattern_4.n_20.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-22Rv1-ENCSR246MLJ.bestfold.profile.pattern_4.n_20.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_0.n_9230.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_0.n_9230.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_1.n_278.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_1.n_278.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_2.n_261.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_2.n_261.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_3.n_135.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_3.n_135.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_4.n_123.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_4.n_123.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_5.n_84.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_5.n_84.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_6.n_66.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_6.n_66.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_7.n_29.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_7.n_29.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_8.n_26.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-C4-2B-ENCSR027UFT.bestfold.profile.pattern_8.n_26.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_0.n_12729.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_0.n_12729.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_1.n_177.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_1.n_177.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_2.n_94.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_2.n_94.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_3.n_50.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_3.n_50.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_4.n_34.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_4.n_34.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_5.n_25.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HCT116-ENCSR503GVO.bestfold.profile.pattern_5.n_25.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_0.n_6751.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_0.n_6751.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_10.n_149.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_10.n_149.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_11.n_99.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_11.n_99.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_12.n_74.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_12.n_74.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_13.n_67.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_13.n_67.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_14.n_61.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_14.n_61.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_15.n_59.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_15.n_59.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_16.n_55.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_16.n_55.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_17.n_51.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_17.n_51.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_18.n_47.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_18.n_47.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_19.n_45.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_19.n_45.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_1.n_2378.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_1.n_2378.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_20.n_45.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_20.n_45.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_21.n_30.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_21.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_22.n_25.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_22.n_25.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_23.n_25.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_23.n_25.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_2.n_353.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_2.n_353.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_3.n_291.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_3.n_291.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_4.n_245.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_4.n_245.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_5.n_233.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_5.n_233.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_6.n_218.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_6.n_218.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_7.n_191.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_7.n_191.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_8.n_182.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_8.n_182.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_9.n_181.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HEK293T-ENCSR218GSN.bestfold.profile.pattern_9.n_181.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_0.n_16997.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_0.n_16997.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_10.n_288.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_10.n_288.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_11.n_249.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_11.n_249.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_12.n_228.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_12.n_228.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_13.n_114.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_13.n_114.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_14.n_94.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_14.n_94.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_15.n_40.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_15.n_40.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_16.n_38.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_16.n_38.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_1.n_2712.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_1.n_2712.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_2.n_2270.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_2.n_2270.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_3.n_693.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_3.n_693.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_4.n_640.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_4.n_640.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_5.n_611.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_5.n_611.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_6.n_415.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_6.n_415.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_7.n_396.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_7.n_396.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_8.n_366.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_8.n_366.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_9.n_342.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-HepG2-ENCSR266HHO.bestfold.profile.pattern_9.n_342.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_0.n_15446.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_0.n_15446.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_10.n_198.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_10.n_198.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_11.n_163.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_11.n_163.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_12.n_162.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_12.n_162.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_13.n_130.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_13.n_130.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_14.n_92.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_14.n_92.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_15.n_32.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_15.n_32.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_16.n_30.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_16.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_17.n_20.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_17.n_20.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_1.n_1113.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_1.n_1113.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_2.n_501.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_2.n_501.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_3.n_360.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_3.n_360.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_4.n_297.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_4.n_297.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_5.n_294.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_5.n_294.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_6.n_292.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_6.n_292.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_7.n_275.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_7.n_275.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_8.n_235.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_8.n_235.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_9.n_227.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR628DJK.bestfold.profile.pattern_9.n_227.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_0.n_12661.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_0.n_12661.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_10.n_50.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_10.n_50.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_11.n_50.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_11.n_50.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_12.n_40.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_12.n_40.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_13.n_39.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_13.n_39.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_14.n_32.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_14.n_32.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_15.n_29.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_15.n_29.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_16.n_20.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_16.n_20.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_1.n_404.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_1.n_404.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_2.n_336.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_2.n_336.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_3.n_221.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_3.n_221.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_4.n_220.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_4.n_220.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_5.n_197.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_5.n_197.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_6.n_187.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_6.n_187.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_7.n_101.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_7.n_101.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_8.n_100.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_8.n_100.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_9.n_54.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-K562-ENCSR920ASP.bestfold.profile.pattern_9.n_54.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_0.n_7900.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_0.n_7900.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_10.n_100.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_10.n_100.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_11.n_97.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_11.n_97.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_12.n_96.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_12.n_96.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_13.n_88.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_13.n_88.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_14.n_88.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_14.n_88.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_15.n_86.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_15.n_86.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_16.n_73.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_16.n_73.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_17.n_53.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_17.n_53.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_18.n_52.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_18.n_52.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_1.n_1762.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_1.n_1762.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_2.n_314.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_2.n_314.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_3.n_279.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_3.n_279.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_4.n_256.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_4.n_256.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_5.n_248.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_5.n_248.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_6.n_206.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_6.n_206.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_7.n_183.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_7.n_183.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_8.n_137.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_8.n_137.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZFX-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_9.n_127.PWM.meme motif-alignments-all-vs-all/ZFX/ZFX-201-vs-ZFX-MCF-7-ENCSR435OQD.bestfold.profile.pattern_9.n_127.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL3-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_0.n_2058.PWM.meme motif-alignments-all-vs-all/OVOL3/OVOL3-202-vs-OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_0.n_2058.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL3-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_1.n_1860.PWM.meme motif-alignments-all-vs-all/OVOL3/OVOL3-202-vs-OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_1.n_1860.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL3-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_2.n_749.PWM.meme motif-alignments-all-vs-all/OVOL3/OVOL3-202-vs-OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_2.n_749.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL3-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_3.n_535.PWM.meme motif-alignments-all-vs-all/OVOL3/OVOL3-202-vs-OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_3.n_535.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL3-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_4.n_344.PWM.meme motif-alignments-all-vs-all/OVOL3/OVOL3-202-vs-OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_4.n_344.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL3-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_5.n_202.PWM.meme motif-alignments-all-vs-all/OVOL3/OVOL3-202-vs-OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_5.n_202.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL3-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_6.n_137.PWM.meme motif-alignments-all-vs-all/OVOL3/OVOL3-202-vs-OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_6.n_137.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL3-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_7.n_63.PWM.meme motif-alignments-all-vs-all/OVOL3/OVOL3-202-vs-OVOL3-HEK293-ENCSR768LIO.bestfold.profile.pattern_7.n_63.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_0.n_7222.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_0.n_7222.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_10.n_303.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_10.n_303.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_11.n_226.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_11.n_226.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_12.n_180.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_12.n_180.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_13.n_80.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_13.n_80.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_14.n_49.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_14.n_49.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_15.n_46.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_15.n_46.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_16.n_39.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_16.n_39.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_1.n_3414.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_1.n_3414.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_2.n_3287.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_2.n_3287.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_3.n_3270.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_3.n_3270.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_4.n_1453.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_4.n_1453.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_5.n_1223.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_5.n_1223.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_6.n_1128.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_6.n_1128.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_7.n_612.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_7.n_612.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_8.n_512.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_8.n_512.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OVOL1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_9.n_347.PWM.meme motif-alignments-all-vs-all/OVOL1/OVOL1-201-vs-OVOL1-MCF-7-ENCSR829WBA.bestfold.profile.pattern_9.n_347.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/AEBP2-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_0.n_1401.PWM.meme motif-alignments-all-vs-all/AEBP2/AEBP2-202-vs-AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_0.n_1401.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/AEBP2-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_1.n_191.PWM.meme motif-alignments-all-vs-all/AEBP2/AEBP2-202-vs-AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_1.n_191.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/AEBP2-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_2.n_61.PWM.meme motif-alignments-all-vs-all/AEBP2/AEBP2-202-vs-AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_2.n_61.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/AEBP2-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_3.n_61.PWM.meme motif-alignments-all-vs-all/AEBP2/AEBP2-202-vs-AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_3.n_61.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/AEBP2-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_4.n_46.PWM.meme motif-alignments-all-vs-all/AEBP2/AEBP2-202-vs-AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_4.n_46.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/AEBP2-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_5.n_45.PWM.meme motif-alignments-all-vs-all/AEBP2/AEBP2-202-vs-AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_5.n_45.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/AEBP2-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_6.n_35.PWM.meme motif-alignments-all-vs-all/AEBP2/AEBP2-202-vs-AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_6.n_35.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/AEBP2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_0.n_1401.PWM.meme motif-alignments-all-vs-all/AEBP2/AEBP2-204-vs-AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_0.n_1401.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/AEBP2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_1.n_191.PWM.meme motif-alignments-all-vs-all/AEBP2/AEBP2-204-vs-AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_1.n_191.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/AEBP2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_2.n_61.PWM.meme motif-alignments-all-vs-all/AEBP2/AEBP2-204-vs-AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_2.n_61.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/AEBP2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_3.n_61.PWM.meme motif-alignments-all-vs-all/AEBP2/AEBP2-204-vs-AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_3.n_61.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/AEBP2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_4.n_46.PWM.meme motif-alignments-all-vs-all/AEBP2/AEBP2-204-vs-AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_4.n_46.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/AEBP2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_5.n_45.PWM.meme motif-alignments-all-vs-all/AEBP2/AEBP2-204-vs-AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_5.n_45.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/AEBP2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_6.n_35.PWM.meme motif-alignments-all-vs-all/AEBP2/AEBP2-204-vs-AEBP2-HEK293-ENCSR769JRS.bestfold.profile.pattern_6.n_35.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_0.n_3527.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_0.n_3527.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_10.n_189.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_10.n_189.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_11.n_187.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_11.n_187.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_12.n_183.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_12.n_183.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_13.n_174.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_13.n_174.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_14.n_112.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_14.n_112.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_15.n_72.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_15.n_72.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_16.n_33.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_16.n_33.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_17.n_33.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_17.n_33.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_18.n_29.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_18.n_29.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_1.n_3392.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_1.n_3392.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_2.n_2470.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_2.n_2470.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_3.n_1155.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_3.n_1155.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_4.n_838.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_4.n_838.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_5.n_752.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_5.n_752.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_6.n_658.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_6.n_658.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_7.n_564.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_7.n_564.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_8.n_295.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_8.n_295.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_9.n_231.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_9.n_231.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_0.n_1217.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_0.n_1217.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_10.n_83.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_10.n_83.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_11.n_36.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_11.n_36.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_12.n_32.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_12.n_32.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_1.n_1000.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_1.n_1000.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_2.n_434.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_2.n_434.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_3.n_428.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_3.n_428.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_4.n_371.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_4.n_371.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_5.n_331.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_5.n_331.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_6.n_150.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_6.n_150.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_7.n_121.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_7.n_121.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_8.n_109.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_8.n_109.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_9.n_91.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-201-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_9.n_91.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_0.n_3527.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_0.n_3527.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_10.n_189.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_10.n_189.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_11.n_187.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_11.n_187.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_12.n_183.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_12.n_183.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_13.n_174.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_13.n_174.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_14.n_112.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_14.n_112.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_15.n_72.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_15.n_72.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_16.n_33.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_16.n_33.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_17.n_33.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_17.n_33.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_18.n_29.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_18.n_29.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_1.n_3392.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_1.n_3392.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_2.n_2470.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_2.n_2470.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_3.n_1155.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_3.n_1155.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_4.n_838.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_4.n_838.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_5.n_752.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_5.n_752.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_6.n_658.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_6.n_658.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_7.n_564.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_7.n_564.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_8.n_295.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_8.n_295.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_9.n_231.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_9.n_231.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_0.n_1217.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_0.n_1217.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_10.n_83.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_10.n_83.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_11.n_36.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_11.n_36.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_12.n_32.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_12.n_32.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_1.n_1000.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_1.n_1000.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_2.n_434.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_2.n_434.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_3.n_428.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_3.n_428.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_4.n_371.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_4.n_371.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_5.n_331.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_5.n_331.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_6.n_150.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_6.n_150.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_7.n_121.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_7.n_121.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_8.n_109.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_8.n_109.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_9.n_91.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-203-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_9.n_91.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_0.n_3527.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_0.n_3527.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_10.n_189.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_10.n_189.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_11.n_187.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_11.n_187.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_12.n_183.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_12.n_183.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_13.n_174.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_13.n_174.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_14.n_112.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_14.n_112.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_15.n_72.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_15.n_72.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_16.n_33.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_16.n_33.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_17.n_33.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_17.n_33.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_18.n_29.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_18.n_29.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_1.n_3392.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_1.n_3392.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_2.n_2470.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_2.n_2470.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_3.n_1155.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_3.n_1155.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_4.n_838.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_4.n_838.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_5.n_752.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_5.n_752.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_6.n_658.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_6.n_658.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_7.n_564.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_7.n_564.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_8.n_295.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_8.n_295.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_9.n_231.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_9.n_231.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_0.n_1217.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_0.n_1217.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_10.n_83.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_10.n_83.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_11.n_36.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_11.n_36.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_12.n_32.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_12.n_32.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_1.n_1000.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_1.n_1000.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_2.n_434.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_2.n_434.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_3.n_428.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_3.n_428.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_4.n_371.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_4.n_371.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_5.n_331.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_5.n_331.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_6.n_150.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_6.n_150.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_7.n_121.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_7.n_121.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_8.n_109.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_8.n_109.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_9.n_91.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-207-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_9.n_91.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_0.n_3527.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_0.n_3527.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_10.n_189.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_10.n_189.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_11.n_187.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_11.n_187.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_12.n_183.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_12.n_183.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_13.n_174.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_13.n_174.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_14.n_112.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_14.n_112.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_15.n_72.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_15.n_72.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_16.n_33.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_16.n_33.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_17.n_33.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_17.n_33.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_18.n_29.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_18.n_29.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_1.n_3392.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_1.n_3392.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_2.n_2470.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_2.n_2470.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_3.n_1155.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_3.n_1155.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_4.n_838.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_4.n_838.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_5.n_752.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_5.n_752.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_6.n_658.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_6.n_658.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_7.n_564.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_7.n_564.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_8.n_295.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_8.n_295.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_9.n_231.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-HepG2-ENCSR180MUU.bestfold.profile.pattern_9.n_231.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_0.n_1217.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_0.n_1217.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_10.n_83.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_10.n_83.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_11.n_36.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_11.n_36.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_12.n_32.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_12.n_32.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_1.n_1000.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_1.n_1000.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_2.n_434.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_2.n_434.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_3.n_428.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_3.n_428.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_4.n_371.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_4.n_371.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_5.n_331.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_5.n_331.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_6.n_150.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_6.n_150.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_7.n_121.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_7.n_121.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_8.n_109.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_8.n_109.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/RREB1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_9.n_91.PWM.meme motif-alignments-all-vs-all/RREB1/RREB1-210-vs-RREB1-K562-ENCSR250WFW.bestfold.profile.pattern_9.n_91.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_12.n_278.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_12.n_278.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_14.n_136.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_14.n_136.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_1.n_335.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_1.n_335.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-201-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_12.n_278.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_12.n_278.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_14.n_136.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_14.n_136.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_1.n_335.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_1.n_335.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-210-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_12.n_278.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_12.n_278.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_14.n_136.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_14.n_136.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_1.n_335.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_1.n_335.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-218/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-218-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_12.n_278.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_12.n_278.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_14.n_136.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_14.n_136.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_1.n_335.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_1.n_335.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-203-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_12.n_278.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_12.n_278.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_14.n_136.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_14.n_136.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_1.n_335.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_1.n_335.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-211-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_0.n_3075.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_10.n_45.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_11.n_37.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_12.n_20.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_1.n_2259.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_2.n_1834.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_3.n_1623.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_4.n_1306.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_5.n_666.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_6.n_448.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_7.n_184.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_8.n_89.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR000EUJ.bestfold.profile.pattern_9.n_86.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_0.n_7341.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_10.n_364.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_11.n_359.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_12.n_348.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_13.n_345.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_14.n_300.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_15.n_223.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_16.n_156.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_17.n_125.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_18.n_40.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_19.n_31.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_1.n_5934.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_2.n_4824.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_3.n_4718.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_4.n_3502.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_5.n_2352.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_6.n_878.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_7.n_792.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_8.n_553.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR441VHN.bestfold.profile.pattern_9.n_414.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_0.n_6937.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_10.n_397.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_11.n_386.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_12.n_278.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_12.n_278.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_13.n_214.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_14.n_136.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_14.n_136.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_15.n_108.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_16.n_76.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_17.n_71.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_18.n_63.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_19.n_62.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_1.n_5916.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_20.n_55.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_21.n_49.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_2.n_4923.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_3.n_3936.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_4.n_3838.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_5.n_3745.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_6.n_966.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_7.n_932.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_8.n_534.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-GM12878-ENCSR874AFU.bestfold.profile.pattern_9.n_471.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_0.n_337.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_1.n_335.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_1.n_335.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_2.n_238.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_3.n_116.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_4.n_115.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_5.n_92.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_6.n_70.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-HepG2-ENCSR278JQG.bestfold.profile.pattern_7.n_66.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_0.n_9753.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_10.n_1041.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_11.n_550.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_12.n_507.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_13.n_398.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_14.n_276.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_15.n_243.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_16.n_209.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_17.n_203.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_18.n_178.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_19.n_145.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_1.n_7571.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_20.n_129.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_21.n_94.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_22.n_93.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_23.n_88.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_24.n_80.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_25.n_78.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_26.n_63.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_27.n_43.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_28.n_34.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_29.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_2.n_2715.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_30.n_28.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_31.n_24.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_32.n_23.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_33.n_22.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_34.n_20.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_35.n_20.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_3.n_1927.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_4.n_1654.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_5.n_1624.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_6.n_1570.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_7.n_1509.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_8.n_1310.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR395HWC.bestfold.profile.pattern_9.n_1215.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_0.n_8470.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_10.n_882.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_11.n_633.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_12.n_592.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_13.n_500.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_14.n_468.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_15.n_423.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_16.n_367.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_17.n_291.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_18.n_256.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_19.n_245.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_1.n_8456.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_20.n_240.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_21.n_185.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_22.n_144.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_23.n_124.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_24.n_100.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_25.n_84.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_26.n_62.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_27.n_39.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_28.n_33.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_29.n_23.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_2.n_2838.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_3.n_1890.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_4.n_1888.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_5.n_1710.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_6.n_1619.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_7.n_1443.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_8.n_1051.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF1-217/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.PWM.meme motif-alignments-all-vs-all/IKZF1/IKZF1-217-vs-IKZF1-K562-ENCSR948VFL.bestfold.profile.pattern_9.n_911.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_0.n_8199.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_0.n_8199.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_10.n_324.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_10.n_324.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_11.n_286.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_11.n_286.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_12.n_223.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_12.n_223.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_13.n_218.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_13.n_218.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_14.n_212.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_14.n_212.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_15.n_193.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_15.n_193.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_16.n_117.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_16.n_117.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_17.n_68.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_17.n_68.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_18.n_51.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_18.n_51.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_19.n_50.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_19.n_50.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_1.n_5691.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_1.n_5691.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_20.n_44.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_20.n_44.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_21.n_35.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_21.n_35.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_22.n_32.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_22.n_32.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_23.n_26.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_23.n_26.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_24.n_21.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_24.n_21.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_2.n_5459.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_2.n_5459.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_3.n_4524.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_3.n_4524.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_4.n_4169.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_4.n_4169.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_5.n_3056.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_5.n_3056.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_6.n_762.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_6.n_762.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_7.n_644.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_7.n_644.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_8.n_475.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_8.n_475.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_9.n_457.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_9.n_457.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_0.n_7444.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_0.n_7444.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_10.n_494.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_10.n_494.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_11.n_480.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_11.n_480.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_12.n_323.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_12.n_323.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_13.n_254.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_13.n_254.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_14.n_158.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_14.n_158.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_15.n_116.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_15.n_116.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_16.n_96.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_16.n_96.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_17.n_71.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_17.n_71.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_18.n_70.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_18.n_70.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_19.n_62.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_19.n_62.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_1.n_5084.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_1.n_5084.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_20.n_57.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_20.n_57.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_21.n_48.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_21.n_48.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_22.n_24.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_22.n_24.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_23.n_23.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_23.n_23.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_2.n_5078.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_2.n_5078.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_3.n_4167.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_3.n_4167.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_4.n_4057.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_4.n_4057.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_5.n_2801.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_5.n_2801.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_6.n_1068.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_6.n_1068.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_7.n_753.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_7.n_753.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_8.n_689.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_8.n_689.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_9.n_652.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-201-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_9.n_652.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_0.n_8199.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_0.n_8199.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_10.n_324.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_10.n_324.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_11.n_286.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_11.n_286.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_12.n_223.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_12.n_223.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_13.n_218.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_13.n_218.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_14.n_212.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_14.n_212.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_15.n_193.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_15.n_193.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_16.n_117.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_16.n_117.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_17.n_68.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_17.n_68.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_18.n_51.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_18.n_51.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_19.n_50.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_19.n_50.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_1.n_5691.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_1.n_5691.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_20.n_44.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_20.n_44.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_21.n_35.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_21.n_35.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_22.n_32.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_22.n_32.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_23.n_26.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_23.n_26.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_24.n_21.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_24.n_21.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_2.n_5459.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_2.n_5459.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_3.n_4524.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_3.n_4524.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_4.n_4169.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_4.n_4169.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_5.n_3056.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_5.n_3056.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_6.n_762.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_6.n_762.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_7.n_644.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_7.n_644.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_8.n_475.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_8.n_475.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_9.n_457.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_9.n_457.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_0.n_7444.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_0.n_7444.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_10.n_494.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_10.n_494.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_11.n_480.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_11.n_480.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_12.n_323.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_12.n_323.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_13.n_254.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_13.n_254.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_14.n_158.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_14.n_158.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_15.n_116.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_15.n_116.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_16.n_96.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_16.n_96.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_17.n_71.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_17.n_71.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_18.n_70.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_18.n_70.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_19.n_62.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_19.n_62.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_1.n_5084.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_1.n_5084.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_20.n_57.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_20.n_57.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_21.n_48.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_21.n_48.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_22.n_24.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_22.n_24.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_23.n_23.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_23.n_23.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_2.n_5078.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_2.n_5078.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_3.n_4167.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_3.n_4167.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_4.n_4057.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_4.n_4057.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_5.n_2801.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_5.n_2801.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_6.n_1068.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_6.n_1068.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_7.n_753.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_7.n_753.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_8.n_689.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_8.n_689.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_9.n_652.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-205-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_9.n_652.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_0.n_8199.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_0.n_8199.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_10.n_324.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_10.n_324.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_11.n_286.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_11.n_286.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_12.n_223.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_12.n_223.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_13.n_218.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_13.n_218.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_14.n_212.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_14.n_212.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_15.n_193.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_15.n_193.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_16.n_117.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_16.n_117.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_17.n_68.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_17.n_68.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_18.n_51.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_18.n_51.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_19.n_50.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_19.n_50.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_1.n_5691.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_1.n_5691.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_20.n_44.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_20.n_44.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_21.n_35.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_21.n_35.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_22.n_32.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_22.n_32.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_23.n_26.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_23.n_26.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_24.n_21.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_24.n_21.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_2.n_5459.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_2.n_5459.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_3.n_4524.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_3.n_4524.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_4.n_4169.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_4.n_4169.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_5.n_3056.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_5.n_3056.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_6.n_762.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_6.n_762.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_7.n_644.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_7.n_644.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_8.n_475.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_8.n_475.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_9.n_457.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_9.n_457.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_0.n_7444.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_0.n_7444.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_10.n_494.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_10.n_494.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_11.n_480.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_11.n_480.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_12.n_323.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_12.n_323.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_13.n_254.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_13.n_254.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_14.n_158.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_14.n_158.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_15.n_116.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_15.n_116.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_16.n_96.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_16.n_96.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_17.n_71.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_17.n_71.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_18.n_70.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_18.n_70.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_19.n_62.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_19.n_62.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_1.n_5084.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_1.n_5084.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_20.n_57.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_20.n_57.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_21.n_48.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_21.n_48.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_22.n_24.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_22.n_24.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_23.n_23.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_23.n_23.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_2.n_5078.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_2.n_5078.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_3.n_4167.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_3.n_4167.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_4.n_4057.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_4.n_4057.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_5.n_2801.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_5.n_2801.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_6.n_1068.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_6.n_1068.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_7.n_753.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_7.n_753.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_8.n_689.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_8.n_689.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-213/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_9.n_652.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-213-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_9.n_652.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_0.n_8199.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_0.n_8199.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_10.n_324.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_10.n_324.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_11.n_286.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_11.n_286.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_12.n_223.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_12.n_223.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_13.n_218.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_13.n_218.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_14.n_212.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_14.n_212.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_15.n_193.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_15.n_193.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_16.n_117.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_16.n_117.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_17.n_68.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_17.n_68.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_18.n_51.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_18.n_51.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_19.n_50.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_19.n_50.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_1.n_5691.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_1.n_5691.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_20.n_44.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_20.n_44.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_21.n_35.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_21.n_35.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_22.n_32.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_22.n_32.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_23.n_26.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_23.n_26.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_24.n_21.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_24.n_21.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_2.n_5459.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_2.n_5459.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_3.n_4524.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_3.n_4524.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_4.n_4169.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_4.n_4169.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_5.n_3056.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_5.n_3056.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_6.n_762.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_6.n_762.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_7.n_644.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_7.n_644.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_8.n_475.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_8.n_475.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_9.n_457.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR680UQE.bestfold.profile.pattern_9.n_457.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_0.n_7444.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_0.n_7444.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_10.n_494.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_10.n_494.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_11.n_480.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_11.n_480.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_12.n_323.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_12.n_323.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_13.n_254.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_13.n_254.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_14.n_158.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_14.n_158.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_15.n_116.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_15.n_116.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_16.n_96.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_16.n_96.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_17.n_71.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_17.n_71.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_18.n_70.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_18.n_70.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_19.n_62.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_19.n_62.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_1.n_5084.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_1.n_5084.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_20.n_57.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_20.n_57.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_21.n_48.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_21.n_48.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_22.n_24.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_22.n_24.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_23.n_23.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_23.n_23.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_2.n_5078.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_2.n_5078.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_3.n_4167.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_3.n_4167.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_4.n_4057.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_4.n_4057.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_5.n_2801.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_5.n_2801.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_6.n_1068.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_6.n_1068.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_7.n_753.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_7.n_753.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_8.n_689.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_8.n_689.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/IKZF2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_9.n_652.PWM.meme motif-alignments-all-vs-all/IKZF2/IKZF2-208-vs-IKZF2-GM12878-ENCSR822AHX.bestfold.profile.pattern_9.n_652.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_0.n_665.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_0.n_665.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_10.n_104.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_10.n_104.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_11.n_95.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_11.n_95.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_12.n_83.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_12.n_83.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_13.n_80.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_13.n_80.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_14.n_78.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_14.n_78.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_15.n_74.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_15.n_74.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_16.n_70.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_16.n_70.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_17.n_64.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_17.n_64.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_18.n_58.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_18.n_58.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_19.n_49.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_19.n_49.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_1.n_367.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_1.n_367.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_20.n_48.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_20.n_48.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_21.n_45.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_21.n_45.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_22.n_44.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_22.n_44.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_23.n_40.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_23.n_40.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_24.n_37.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_24.n_37.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_25.n_31.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_25.n_31.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_26.n_27.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_26.n_27.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_2.n_237.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_2.n_237.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_3.n_235.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_3.n_235.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_4.n_230.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_4.n_230.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_5.n_145.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_5.n_145.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_6.n_142.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_6.n_142.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_7.n_140.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_7.n_140.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_8.n_132.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_8.n_132.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_9.n_131.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_9.n_131.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_0.n_4621.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_0.n_4621.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_1.n_1496.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_1.n_1496.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_2.n_520.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_2.n_520.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_3.n_279.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_3.n_279.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_4.n_199.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_4.n_199.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_5.n_191.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_5.n_191.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_6.n_64.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_6.n_64.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_7.n_54.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_7.n_54.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_8.n_32.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_8.n_32.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_9.n_21.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-201-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_9.n_21.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_0.n_665.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_0.n_665.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_10.n_104.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_10.n_104.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_11.n_95.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_11.n_95.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_12.n_83.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_12.n_83.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_13.n_80.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_13.n_80.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_14.n_78.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_14.n_78.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_15.n_74.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_15.n_74.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_16.n_70.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_16.n_70.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_17.n_64.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_17.n_64.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_18.n_58.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_18.n_58.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_19.n_49.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_19.n_49.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_1.n_367.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_1.n_367.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_20.n_48.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_20.n_48.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_21.n_45.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_21.n_45.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_22.n_44.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_22.n_44.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_23.n_40.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_23.n_40.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_24.n_37.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_24.n_37.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_25.n_31.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_25.n_31.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_26.n_27.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_26.n_27.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_2.n_237.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_2.n_237.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_3.n_235.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_3.n_235.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_4.n_230.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_4.n_230.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_5.n_145.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_5.n_145.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_6.n_142.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_6.n_142.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_7.n_140.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_7.n_140.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_8.n_132.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_8.n_132.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_9.n_131.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-HepG2-ENCSR756SZU.bestfold.profile.pattern_9.n_131.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_0.n_4621.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_0.n_4621.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_1.n_1496.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_1.n_1496.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_2.n_520.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_2.n_520.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_3.n_279.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_3.n_279.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_4.n_199.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_4.n_199.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_5.n_191.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_5.n_191.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_6.n_64.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_6.n_64.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_7.n_54.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_7.n_54.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_8.n_32.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_8.n_32.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF13-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_9.n_21.PWM.meme motif-alignments-all-vs-all/KLF13/KLF13-207-vs-KLF13-K562-ENCSR608HVP.bestfold.profile.pattern_9.n_21.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_0.n_8980.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_0.n_8980.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_10.n_46.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_10.n_46.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_1.n_7835.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_1.n_7835.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_2.n_1002.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_2.n_1002.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_3.n_355.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_3.n_355.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_4.n_331.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_4.n_331.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_5.n_307.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_5.n_307.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_6.n_143.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_6.n_143.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_7.n_113.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_7.n_113.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_8.n_91.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_8.n_91.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_9.n_79.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_9.n_79.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_0.n_289.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_0.n_289.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_10.n_48.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_10.n_48.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_11.n_32.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_11.n_32.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_12.n_24.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_12.n_24.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_1.n_153.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_1.n_153.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_2.n_150.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_2.n_150.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_3.n_102.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_3.n_102.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_4.n_96.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_4.n_96.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_5.n_81.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_5.n_81.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_6.n_80.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_6.n_80.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_7.n_66.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_7.n_66.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_8.n_66.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_8.n_66.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_9.n_65.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-201-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_9.n_65.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_0.n_8980.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_0.n_8980.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_10.n_46.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_10.n_46.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_1.n_7835.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_1.n_7835.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_2.n_1002.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_2.n_1002.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_3.n_355.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_3.n_355.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_4.n_331.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_4.n_331.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_5.n_307.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_5.n_307.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_6.n_143.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_6.n_143.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_7.n_113.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_7.n_113.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_8.n_91.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_8.n_91.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_9.n_79.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HEK293-ENCSR443MVV.bestfold.profile.pattern_9.n_79.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_0.n_289.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_0.n_289.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_10.n_48.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_10.n_48.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_11.n_32.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_11.n_32.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_12.n_24.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_12.n_24.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_1.n_153.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_1.n_153.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_2.n_150.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_2.n_150.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_3.n_102.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_3.n_102.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_4.n_96.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_4.n_96.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_5.n_81.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_5.n_81.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_6.n_80.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_6.n_80.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_7.n_66.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_7.n_66.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_8.n_66.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_8.n_66.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM4-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_9.n_65.PWM.meme motif-alignments-all-vs-all/PRDM4/PRDM4-205-vs-PRDM4-HepG2-ENCSR130NZQ.bestfold.profile.pattern_9.n_65.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_0.n_6045.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-201-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_0.n_6045.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_10.n_92.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-201-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_10.n_92.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_11.n_59.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-201-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_11.n_59.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_1.n_1064.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-201-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_1.n_1064.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_2.n_523.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-201-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_2.n_523.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_3.n_518.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-201-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_3.n_518.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_4.n_501.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-201-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_4.n_501.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_5.n_372.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-201-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_5.n_372.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_6.n_291.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-201-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_6.n_291.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_7.n_285.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-201-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_7.n_285.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_8.n_213.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-201-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_8.n_213.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_9.n_94.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-201-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_9.n_94.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_0.n_6045.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_0.n_6045.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_10.n_92.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_10.n_92.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_11.n_59.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_11.n_59.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_1.n_1064.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_1.n_1064.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_2.n_523.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_2.n_523.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_3.n_518.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_3.n_518.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_4.n_501.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_4.n_501.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_5.n_372.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_5.n_372.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_6.n_291.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_6.n_291.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_7.n_285.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_7.n_285.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_8.n_213.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_8.n_213.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_9.n_94.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-203-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_9.n_94.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_0.n_6045.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_0.n_6045.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_10.n_92.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_10.n_92.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_11.n_59.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_11.n_59.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_1.n_1064.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_1.n_1064.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_2.n_523.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_2.n_523.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_3.n_518.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_3.n_518.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_4.n_501.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_4.n_501.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_5.n_372.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_5.n_372.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_6.n_291.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_6.n_291.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_7.n_285.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_7.n_285.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_8.n_213.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_8.n_213.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1B-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_9.n_94.PWM.meme motif-alignments-all-vs-all/GFI1B/GFI1B-207-vs-GFI1B-HEK293-ENCSR445PDR.bestfold.profile.pattern_9.n_94.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_0.n_5014.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_0.n_5014.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_10.n_248.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_10.n_248.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_11.n_246.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_11.n_246.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_12.n_225.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_12.n_225.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_13.n_215.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_13.n_215.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_14.n_195.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_14.n_195.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_15.n_182.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_15.n_182.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_16.n_168.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_16.n_168.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_17.n_167.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_17.n_167.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_18.n_161.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_18.n_161.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_19.n_158.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_19.n_158.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_1.n_2886.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_1.n_2886.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_20.n_143.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_20.n_143.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_21.n_127.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_21.n_127.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_22.n_119.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_22.n_119.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_23.n_109.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_23.n_109.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_24.n_108.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_24.n_108.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_25.n_103.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_25.n_103.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_26.n_80.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_26.n_80.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_27.n_75.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_27.n_75.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_28.n_65.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_28.n_65.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_29.n_59.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_29.n_59.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_2.n_2373.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_2.n_2373.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_30.n_26.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_30.n_26.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_31.n_20.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_31.n_20.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_3.n_551.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_3.n_551.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_4.n_408.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_4.n_408.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_5.n_391.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_5.n_391.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_6.n_348.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_6.n_348.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_7.n_337.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_7.n_337.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_8.n_303.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_8.n_303.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIC1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_9.n_300.PWM.meme motif-alignments-all-vs-all/HIC1/HIC1-201-vs-HIC1-HEK293-ENCSR803GYT.bestfold.profile.pattern_9.n_300.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_0.n_727.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_0.n_727.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_1.n_362.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_1.n_362.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_2.n_227.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_2.n_227.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_3.n_195.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_3.n_195.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_4.n_159.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_4.n_159.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_5.n_156.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_5.n_156.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_6.n_138.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_6.n_138.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_7.n_96.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_7.n_96.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_8.n_46.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_8.n_46.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_9.n_33.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HEK306-Hughes_GR_models_KLF15.bestfold.profile.pattern_9.n_33.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_0.n_573.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_0.n_573.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_10.n_115.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_10.n_115.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_11.n_113.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_11.n_113.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_12.n_112.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_12.n_112.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_13.n_108.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_13.n_108.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_14.n_79.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_14.n_79.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_15.n_77.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_15.n_77.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_16.n_62.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_16.n_62.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_17.n_60.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_17.n_60.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_18.n_42.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_18.n_42.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_19.n_37.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_19.n_37.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_1.n_357.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_1.n_357.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_20.n_32.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_20.n_32.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_21.n_21.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_21.n_21.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_2.n_325.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_2.n_325.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_3.n_291.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_3.n_291.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_4.n_255.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_4.n_255.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_5.n_202.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_5.n_202.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_6.n_166.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_6.n_166.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_7.n_150.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_7.n_150.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_8.n_130.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_8.n_130.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_9.n_117.PWM.meme motif-alignments-all-vs-all/KLF15/KLF15-201-vs-KLF15-HepG2-ENCSR860ONE.bestfold.profile.pattern_9.n_117.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-201-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-201-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-201-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-203-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-203-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-203-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-206-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-206-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-206-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-220/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-220-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-220/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-220-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-220/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-220-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-221/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-221-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-221/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-221-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-221/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-221-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-208-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-208-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-208-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-210-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_0.n_14257.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-210-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_1.n_92.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCFL-210/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.PWM.meme motif-alignments-all-vs-all/CTCFL/CTCFL-210-vs-CTCFL-K562-ENCSR000BNK.bestfold.profile.pattern_2.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_0.n_1223.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-201-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_0.n_1223.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_10.n_122.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-201-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_10.n_122.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_11.n_79.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-201-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_11.n_79.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_12.n_57.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-201-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_12.n_57.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_13.n_38.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-201-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_13.n_38.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_14.n_25.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-201-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_14.n_25.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_1.n_506.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-201-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_1.n_506.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_2.n_386.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-201-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_2.n_386.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_3.n_298.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-201-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_3.n_298.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_4.n_284.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-201-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_4.n_284.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_5.n_257.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-201-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_5.n_257.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_6.n_252.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-201-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_6.n_252.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_7.n_241.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-201-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_7.n_241.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_8.n_197.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-201-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_8.n_197.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_9.n_188.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-201-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_9.n_188.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_0.n_1223.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-208-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_0.n_1223.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_10.n_122.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-208-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_10.n_122.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_11.n_79.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-208-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_11.n_79.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_12.n_57.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-208-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_12.n_57.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_13.n_38.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-208-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_13.n_38.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_14.n_25.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-208-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_14.n_25.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_1.n_506.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-208-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_1.n_506.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_2.n_386.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-208-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_2.n_386.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_3.n_298.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-208-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_3.n_298.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_4.n_284.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-208-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_4.n_284.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_5.n_257.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-208-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_5.n_257.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_6.n_252.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-208-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_6.n_252.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_7.n_241.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-208-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_7.n_241.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_8.n_197.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-208-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_8.n_197.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_9.n_188.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-208-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_9.n_188.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_0.n_1223.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-211-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_0.n_1223.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_10.n_122.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-211-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_10.n_122.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_11.n_79.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-211-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_11.n_79.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_12.n_57.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-211-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_12.n_57.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_13.n_38.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-211-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_13.n_38.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_14.n_25.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-211-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_14.n_25.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_1.n_506.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-211-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_1.n_506.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_2.n_386.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-211-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_2.n_386.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_3.n_298.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-211-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_3.n_298.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_4.n_284.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-211-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_4.n_284.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_5.n_257.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-211-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_5.n_257.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_6.n_252.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-211-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_6.n_252.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_7.n_241.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-211-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_7.n_241.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_8.n_197.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-211-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_8.n_197.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GLI2-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_9.n_188.PWM.meme motif-alignments-all-vs-all/GLI2/GLI2-211-vs-GLI2-HEK293-ENCSR978EQY.bestfold.profile.pattern_9.n_188.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_0.n_1856.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_0.n_1856.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_10.n_267.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_10.n_267.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_11.n_257.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_11.n_257.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_12.n_72.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_12.n_72.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_13.n_32.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_13.n_32.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_14.n_31.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_14.n_31.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_1.n_1359.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_1.n_1359.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_2.n_1270.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_2.n_1270.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_3.n_1015.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_3.n_1015.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_4.n_847.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_4.n_847.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_5.n_651.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_5.n_651.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_6.n_562.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_6.n_562.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_7.n_537.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_7.n_537.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_8.n_489.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_8.n_489.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_9.n_373.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_9.n_373.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_0.n_1660.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_0.n_1660.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_10.n_35.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_10.n_35.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_11.n_32.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_11.n_32.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_1.n_584.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_1.n_584.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_2.n_245.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_2.n_245.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_3.n_188.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_3.n_188.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_4.n_162.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_4.n_162.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_5.n_126.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_5.n_126.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_6.n_120.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_6.n_120.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_7.n_107.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_7.n_107.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_8.n_66.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_8.n_66.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_9.n_38.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-204-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_9.n_38.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_0.n_1856.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_0.n_1856.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_10.n_267.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_10.n_267.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_11.n_257.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_11.n_257.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_12.n_72.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_12.n_72.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_13.n_32.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_13.n_32.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_14.n_31.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_14.n_31.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_1.n_1359.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_1.n_1359.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_2.n_1270.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_2.n_1270.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_3.n_1015.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_3.n_1015.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_4.n_847.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_4.n_847.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_5.n_651.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_5.n_651.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_6.n_562.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_6.n_562.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_7.n_537.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_7.n_537.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_8.n_489.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_8.n_489.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_9.n_373.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_9.n_373.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_0.n_1660.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_0.n_1660.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_10.n_35.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_10.n_35.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_11.n_32.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_11.n_32.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_1.n_584.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_1.n_584.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_2.n_245.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_2.n_245.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_3.n_188.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_3.n_188.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_4.n_162.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_4.n_162.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_5.n_126.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_5.n_126.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_6.n_120.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_6.n_120.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_7.n_107.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_7.n_107.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_8.n_66.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_8.n_66.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_9.n_38.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-206-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_9.n_38.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_0.n_1856.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_0.n_1856.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_10.n_267.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_10.n_267.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_11.n_257.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_11.n_257.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_12.n_72.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_12.n_72.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_13.n_32.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_13.n_32.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_14.n_31.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_14.n_31.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_1.n_1359.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_1.n_1359.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_2.n_1270.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_2.n_1270.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_3.n_1015.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_3.n_1015.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_4.n_847.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_4.n_847.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_5.n_651.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_5.n_651.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_6.n_562.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_6.n_562.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_7.n_537.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_7.n_537.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_8.n_489.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_8.n_489.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_9.n_373.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-HepG2-ENCSR757EKM.bestfold.profile.pattern_9.n_373.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_0.n_1660.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_0.n_1660.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_10.n_35.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_10.n_35.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_11.n_32.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_11.n_32.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_1.n_584.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_1.n_584.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_2.n_245.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_2.n_245.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_3.n_188.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_3.n_188.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_4.n_162.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_4.n_162.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_5.n_126.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_5.n_126.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_6.n_120.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_6.n_120.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_7.n_107.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_7.n_107.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_8.n_66.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_8.n_66.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF6-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_9.n_38.PWM.meme motif-alignments-all-vs-all/KLF6/KLF6-207-vs-KLF6-K562-ENCSR297CGF.bestfold.profile.pattern_9.n_38.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_0.n_6539.PWM.meme motif-alignments-all-vs-all/KLF4/KLF4-201-vs-KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_0.n_6539.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_1.n_737.PWM.meme motif-alignments-all-vs-all/KLF4/KLF4-201-vs-KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_1.n_737.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_2.n_520.PWM.meme motif-alignments-all-vs-all/KLF4/KLF4-201-vs-KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_2.n_520.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_3.n_512.PWM.meme motif-alignments-all-vs-all/KLF4/KLF4-201-vs-KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_3.n_512.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_4.n_250.PWM.meme motif-alignments-all-vs-all/KLF4/KLF4-201-vs-KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_4.n_250.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_5.n_99.PWM.meme motif-alignments-all-vs-all/KLF4/KLF4-201-vs-KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_5.n_99.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_6.n_68.PWM.meme motif-alignments-all-vs-all/KLF4/KLF4-201-vs-KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_6.n_68.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF4-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_7.n_21.PWM.meme motif-alignments-all-vs-all/KLF4/KLF4-201-vs-KLF4-MCF-7-ENCSR265WJC.bestfold.profile.pattern_7.n_21.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_0.n_961.PWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_0.n_961.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_10.n_77.PWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_10.n_77.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_11.n_37.PWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_11.n_37.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_12.n_21.PWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_12.n_21.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_1.n_358.PWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_1.n_358.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_2.n_327.PWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_2.n_327.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_3.n_239.PWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_3.n_239.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_4.n_210.PWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_4.n_210.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_5.n_185.PWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_5.n_185.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_6.n_169.PWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_6.n_169.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_7.n_168.PWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_7.n_168.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_8.n_163.PWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_8.n_163.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GZF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_9.n_98.PWM.meme motif-alignments-all-vs-all/GZF1/GZF1-201-vs-GZF1-HepG2-ENCSR479WQX.bestfold.profile.pattern_9.n_98.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_0.n_525.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_0.n_525.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_1.n_380.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_1.n_380.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_2.n_172.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_2.n_172.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_3.n_170.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_3.n_170.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_4.n_165.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_4.n_165.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_5.n_131.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_5.n_131.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_6.n_35.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_6.n_35.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_7.n_26.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HEK293-ENCSR146NLL.bestfold.profile.pattern_7.n_26.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_0.n_3740.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_0.n_3740.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_10.n_234.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_10.n_234.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_11.n_186.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_11.n_186.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_12.n_182.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_12.n_182.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_13.n_105.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_13.n_105.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_14.n_83.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_14.n_83.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_15.n_47.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_15.n_47.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_16.n_37.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_16.n_37.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_17.n_29.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_17.n_29.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_18.n_27.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_18.n_27.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_1.n_3350.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_1.n_3350.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_2.n_2850.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_2.n_2850.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_3.n_1994.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_3.n_1994.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_4.n_622.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_4.n_622.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_5.n_620.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_5.n_620.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_6.n_387.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_6.n_387.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_7.n_307.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_7.n_307.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_8.n_294.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_8.n_294.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REPIN1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_9.n_255.PWM.meme motif-alignments-all-vs-all/REPIN1/REPIN1-201-vs-REPIN1-HepG2-ENCSR893BAO.bestfold.profile.pattern_9.n_255.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_0.n_14035.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_0.n_14035.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_1.n_744.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_1.n_744.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_2.n_636.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_2.n_636.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_3.n_462.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_3.n_462.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_4.n_381.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_4.n_381.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_5.n_176.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_5.n_176.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_6.n_105.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_6.n_105.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_7.n_69.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_7.n_69.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_8.n_61.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HEK293-ENCSR076EZB.bestfold.profile.pattern_8.n_61.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_0.n_1282.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_0.n_1282.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_10.n_196.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_10.n_196.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_11.n_152.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_11.n_152.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_12.n_137.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_12.n_137.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_13.n_114.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_13.n_114.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_14.n_91.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_14.n_91.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_15.n_79.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_15.n_79.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_16.n_46.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_16.n_46.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_1.n_337.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_1.n_337.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_2.n_305.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_2.n_305.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_3.n_301.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_3.n_301.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_4.n_276.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_4.n_276.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_5.n_262.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_5.n_262.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_6.n_237.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_6.n_237.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_7.n_220.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_7.n_220.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_8.n_209.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_8.n_209.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_9.n_198.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-HepG2-ENCSR938ETG.bestfold.profile.pattern_9.n_198.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-MCF-7-ENCSR125ZYC.bestfold.profile.pattern_0.n_16393.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-MCF-7-ENCSR125ZYC.bestfold.profile.pattern_0.n_16393.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-MCF-7-ENCSR125ZYC.bestfold.profile.pattern_1.n_1004.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-MCF-7-ENCSR125ZYC.bestfold.profile.pattern_1.n_1004.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-MCF-7-ENCSR125ZYC.bestfold.profile.pattern_2.n_163.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-MCF-7-ENCSR125ZYC.bestfold.profile.pattern_2.n_163.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-MCF-7-ENCSR125ZYC.bestfold.profile.pattern_3.n_129.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-MCF-7-ENCSR125ZYC.bestfold.profile.pattern_3.n_129.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-MCF-7-ENCSR125ZYC.bestfold.profile.pattern_4.n_104.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-MCF-7-ENCSR125ZYC.bestfold.profile.pattern_4.n_104.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF9-MCF-7-ENCSR125ZYC.bestfold.profile.pattern_5.n_97.PWM.meme motif-alignments-all-vs-all/KLF9/KLF9-201-vs-KLF9-MCF-7-ENCSR125ZYC.bestfold.profile.pattern_5.n_97.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_0.n_4571.PWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_0.n_4571.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_10.n_217.PWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_10.n_217.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_11.n_200.PWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_11.n_200.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_12.n_170.PWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_12.n_170.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_13.n_137.PWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_13.n_137.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_14.n_131.PWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_14.n_131.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_15.n_105.PWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_15.n_105.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_16.n_53.PWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_16.n_53.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_17.n_42.PWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_17.n_42.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_18.n_35.PWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_18.n_35.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_19.n_20.PWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_19.n_20.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_1.n_3190.PWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_1.n_3190.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_2.n_2760.PWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_2.n_2760.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_3.n_946.PWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_3.n_946.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_4.n_945.PWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_4.n_945.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_5.n_842.PWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_5.n_842.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_6.n_663.PWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_6.n_663.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_7.n_422.PWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_7.n_422.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_8.n_255.PWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_8.n_255.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF8-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_9.n_240.PWM.meme motif-alignments-all-vs-all/KLF8/KLF8-204-vs-KLF8-HEK293-ENCSR635NOQ.bestfold.profile.pattern_9.n_240.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_0.n_9855.PWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_0.n_9855.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_10.n_173.PWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_10.n_173.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_11.n_161.PWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_11.n_161.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_12.n_156.PWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_12.n_156.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_13.n_145.PWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_13.n_145.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_14.n_68.PWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_14.n_68.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_15.n_52.PWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_15.n_52.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_16.n_48.PWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_16.n_48.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_17.n_41.PWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_17.n_41.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_18.n_33.PWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_18.n_33.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_19.n_26.PWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_19.n_26.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_1.n_4891.PWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_1.n_4891.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_2.n_4177.PWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_2.n_4177.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_3.n_2075.PWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_3.n_2075.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_4.n_1954.PWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_4.n_1954.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_5.n_626.PWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_5.n_626.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_6.n_343.PWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_6.n_343.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_7.n_264.PWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_7.n_264.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_8.n_218.PWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_8.n_218.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/WT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_9.n_203.PWM.meme motif-alignments-all-vs-all/WT1/WT1-201-vs-WT1-HEK293-ENCSR966PJJ.bestfold.profile.pattern_9.n_203.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TRERF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_0.n_398.PWM.meme motif-alignments-all-vs-all/TRERF1/TRERF1-201-vs-TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_0.n_398.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TRERF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_1.n_114.PWM.meme motif-alignments-all-vs-all/TRERF1/TRERF1-201-vs-TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_1.n_114.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TRERF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_2.n_108.PWM.meme motif-alignments-all-vs-all/TRERF1/TRERF1-201-vs-TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_2.n_108.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TRERF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_3.n_60.PWM.meme motif-alignments-all-vs-all/TRERF1/TRERF1-201-vs-TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_3.n_60.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TRERF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_4.n_60.PWM.meme motif-alignments-all-vs-all/TRERF1/TRERF1-201-vs-TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_4.n_60.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TRERF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_5.n_52.PWM.meme motif-alignments-all-vs-all/TRERF1/TRERF1-201-vs-TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_5.n_52.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TRERF1-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_0.n_398.PWM.meme motif-alignments-all-vs-all/TRERF1/TRERF1-202-vs-TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_0.n_398.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TRERF1-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_1.n_114.PWM.meme motif-alignments-all-vs-all/TRERF1/TRERF1-202-vs-TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_1.n_114.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TRERF1-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_2.n_108.PWM.meme motif-alignments-all-vs-all/TRERF1/TRERF1-202-vs-TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_2.n_108.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TRERF1-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_3.n_60.PWM.meme motif-alignments-all-vs-all/TRERF1/TRERF1-202-vs-TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_3.n_60.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TRERF1-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_4.n_60.PWM.meme motif-alignments-all-vs-all/TRERF1/TRERF1-202-vs-TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_4.n_60.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TRERF1-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_5.n_52.PWM.meme motif-alignments-all-vs-all/TRERF1/TRERF1-202-vs-TRERF1-WTC11-ENCSR547WSB.bestfold.profile.pattern_5.n_52.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TSHZ1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TSHZ1-HEK293-ENCSR958JPH.bestfold.profile.pattern_0.n_1199.PWM.meme motif-alignments-all-vs-all/TSHZ1/TSHZ1-201-vs-TSHZ1-HEK293-ENCSR958JPH.bestfold.profile.pattern_0.n_1199.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TSHZ1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TSHZ1-HEK293-ENCSR958JPH.bestfold.profile.pattern_1.n_360.PWM.meme motif-alignments-all-vs-all/TSHZ1/TSHZ1-201-vs-TSHZ1-HEK293-ENCSR958JPH.bestfold.profile.pattern_1.n_360.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TSHZ1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TSHZ1-HEK293-ENCSR958JPH.bestfold.profile.pattern_2.n_355.PWM.meme motif-alignments-all-vs-all/TSHZ1/TSHZ1-201-vs-TSHZ1-HEK293-ENCSR958JPH.bestfold.profile.pattern_2.n_355.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TSHZ1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TSHZ1-HEK293-ENCSR958JPH.bestfold.profile.pattern_3.n_304.PWM.meme motif-alignments-all-vs-all/TSHZ1/TSHZ1-201-vs-TSHZ1-HEK293-ENCSR958JPH.bestfold.profile.pattern_3.n_304.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TSHZ1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TSHZ1-HEK293-ENCSR958JPH.bestfold.profile.pattern_4.n_256.PWM.meme motif-alignments-all-vs-all/TSHZ1/TSHZ1-201-vs-TSHZ1-HEK293-ENCSR958JPH.bestfold.profile.pattern_4.n_256.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TSHZ1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TSHZ1-HEK293-ENCSR958JPH.bestfold.profile.pattern_5.n_175.PWM.meme motif-alignments-all-vs-all/TSHZ1/TSHZ1-201-vs-TSHZ1-HEK293-ENCSR958JPH.bestfold.profile.pattern_5.n_175.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TSHZ1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TSHZ1-HEK293-ENCSR958JPH.bestfold.profile.pattern_6.n_110.PWM.meme motif-alignments-all-vs-all/TSHZ1/TSHZ1-201-vs-TSHZ1-HEK293-ENCSR958JPH.bestfold.profile.pattern_6.n_110.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TSHZ1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TSHZ1-HEK293-ENCSR958JPH.bestfold.profile.pattern_7.n_83.PWM.meme motif-alignments-all-vs-all/TSHZ1/TSHZ1-201-vs-TSHZ1-HEK293-ENCSR958JPH.bestfold.profile.pattern_7.n_83.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TSHZ1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TSHZ1-HEK293-ENCSR958JPH.bestfold.profile.pattern_8.n_25.PWM.meme motif-alignments-all-vs-all/TSHZ1/TSHZ1-201-vs-TSHZ1-HEK293-ENCSR958JPH.bestfold.profile.pattern_8.n_25.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TSHZ1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TSHZ1-K562-ENCSR958JPH.bestfold.profile.pattern_0.n_1199.PWM.meme motif-alignments-all-vs-all/TSHZ1/TSHZ1-201-vs-TSHZ1-K562-ENCSR958JPH.bestfold.profile.pattern_0.n_1199.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TSHZ1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TSHZ1-K562-ENCSR958JPH.bestfold.profile.pattern_1.n_360.PWM.meme motif-alignments-all-vs-all/TSHZ1/TSHZ1-201-vs-TSHZ1-K562-ENCSR958JPH.bestfold.profile.pattern_1.n_360.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TSHZ1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TSHZ1-K562-ENCSR958JPH.bestfold.profile.pattern_2.n_355.PWM.meme motif-alignments-all-vs-all/TSHZ1/TSHZ1-201-vs-TSHZ1-K562-ENCSR958JPH.bestfold.profile.pattern_2.n_355.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TSHZ1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TSHZ1-K562-ENCSR958JPH.bestfold.profile.pattern_3.n_304.PWM.meme motif-alignments-all-vs-all/TSHZ1/TSHZ1-201-vs-TSHZ1-K562-ENCSR958JPH.bestfold.profile.pattern_3.n_304.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TSHZ1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TSHZ1-K562-ENCSR958JPH.bestfold.profile.pattern_4.n_256.PWM.meme motif-alignments-all-vs-all/TSHZ1/TSHZ1-201-vs-TSHZ1-K562-ENCSR958JPH.bestfold.profile.pattern_4.n_256.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TSHZ1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TSHZ1-K562-ENCSR958JPH.bestfold.profile.pattern_5.n_175.PWM.meme motif-alignments-all-vs-all/TSHZ1/TSHZ1-201-vs-TSHZ1-K562-ENCSR958JPH.bestfold.profile.pattern_5.n_175.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TSHZ1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TSHZ1-K562-ENCSR958JPH.bestfold.profile.pattern_6.n_110.PWM.meme motif-alignments-all-vs-all/TSHZ1/TSHZ1-201-vs-TSHZ1-K562-ENCSR958JPH.bestfold.profile.pattern_6.n_110.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TSHZ1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TSHZ1-K562-ENCSR958JPH.bestfold.profile.pattern_7.n_83.PWM.meme motif-alignments-all-vs-all/TSHZ1/TSHZ1-201-vs-TSHZ1-K562-ENCSR958JPH.bestfold.profile.pattern_7.n_83.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/TSHZ1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/TSHZ1-K562-ENCSR958JPH.bestfold.profile.pattern_8.n_25.PWM.meme motif-alignments-all-vs-all/TSHZ1/TSHZ1-201-vs-TSHZ1-K562-ENCSR958JPH.bestfold.profile.pattern_8.n_25.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HEK293-ENCSR773REP.bestfold.profile.pattern_0.n_945.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HEK293-ENCSR773REP.bestfold.profile.pattern_0.n_945.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HEK293-ENCSR773REP.bestfold.profile.pattern_1.n_714.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HEK293-ENCSR773REP.bestfold.profile.pattern_1.n_714.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HEK293-ENCSR773REP.bestfold.profile.pattern_2.n_637.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HEK293-ENCSR773REP.bestfold.profile.pattern_2.n_637.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HEK293-ENCSR773REP.bestfold.profile.pattern_3.n_133.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HEK293-ENCSR773REP.bestfold.profile.pattern_3.n_133.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HEK293-ENCSR773REP.bestfold.profile.pattern_4.n_49.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HEK293-ENCSR773REP.bestfold.profile.pattern_4.n_49.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HEK293-ENCSR773REP.bestfold.profile.pattern_5.n_40.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HEK293-ENCSR773REP.bestfold.profile.pattern_5.n_40.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HEK293-ENCSR773REP.bestfold.profile.pattern_6.n_40.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HEK293-ENCSR773REP.bestfold.profile.pattern_6.n_40.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR000BQA.bestfold.profile.pattern_0.n_7790.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR000BQA.bestfold.profile.pattern_0.n_7790.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR000BQA.bestfold.profile.pattern_1.n_1398.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR000BQA.bestfold.profile.pattern_1.n_1398.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR000BQA.bestfold.profile.pattern_2.n_358.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR000BQA.bestfold.profile.pattern_2.n_358.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR000BQA.bestfold.profile.pattern_3.n_276.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR000BQA.bestfold.profile.pattern_3.n_276.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR000BQA.bestfold.profile.pattern_4.n_160.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR000BQA.bestfold.profile.pattern_4.n_160.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR000BQA.bestfold.profile.pattern_5.n_149.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR000BQA.bestfold.profile.pattern_5.n_149.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR000BQA.bestfold.profile.pattern_6.n_132.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR000BQA.bestfold.profile.pattern_6.n_132.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR000BQA.bestfold.profile.pattern_7.n_84.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR000BQA.bestfold.profile.pattern_7.n_84.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR000BQA.bestfold.profile.pattern_8.n_28.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR000BQA.bestfold.profile.pattern_8.n_28.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_0.n_1996.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_0.n_1996.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_10.n_283.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_10.n_283.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_11.n_279.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_11.n_279.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_12.n_252.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_12.n_252.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_13.n_119.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_13.n_119.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_14.n_102.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_14.n_102.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_15.n_37.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_15.n_37.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_16.n_36.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_16.n_36.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_17.n_31.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_17.n_31.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_18.n_30.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_18.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_19.n_26.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_19.n_26.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_1.n_1102.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_1.n_1102.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_20.n_21.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_20.n_21.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_2.n_845.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_2.n_845.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_3.n_838.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_3.n_838.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_4.n_548.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_4.n_548.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_5.n_525.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_5.n_525.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_6.n_512.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_6.n_512.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_7.n_473.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_7.n_473.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_8.n_341.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_8.n_341.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_9.n_298.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-HepG2-ENCSR850YDX.bestfold.profile.pattern_9.n_298.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_0.n_8887.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_0.n_8887.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_10.n_51.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_10.n_51.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_11.n_24.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_11.n_24.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_12.n_22.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_12.n_22.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_1.n_805.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_1.n_805.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_2.n_782.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_2.n_782.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_3.n_683.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_3.n_683.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_4.n_342.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_4.n_342.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_5.n_279.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_5.n_279.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_6.n_201.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_6.n_201.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_7.n_106.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_7.n_106.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_8.n_58.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_8.n_58.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_9.n_56.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-Ishikawa-ENCSR000BSZ.bestfold.profile.pattern_9.n_56.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_0.n_11687.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_0.n_11687.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_10.n_49.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_10.n_49.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_11.n_39.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_11.n_39.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_12.n_30.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_12.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_1.n_3841.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_1.n_3841.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_2.n_1526.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_2.n_1526.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_3.n_907.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_3.n_907.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_4.n_564.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_4.n_564.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_5.n_415.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_5.n_415.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_6.n_388.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_6.n_388.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_7.n_286.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_7.n_286.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_8.n_203.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_8.n_203.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB7A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_9.n_120.PWM.meme motif-alignments-all-vs-all/ZBTB7A/ZBTB7A-201-vs-ZBTB7A-K562-ENCSR000BME.bestfold.profile.pattern_9.n_120.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_0.n_11128.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_0.n_11128.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_10.n_434.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_10.n_434.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_11.n_433.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_11.n_433.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_12.n_413.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_12.n_413.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_13.n_326.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_13.n_326.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_14.n_261.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_14.n_261.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_15.n_201.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_15.n_201.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_16.n_45.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_16.n_45.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_17.n_29.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_17.n_29.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_18.n_24.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_18.n_24.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_1.n_1450.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_1.n_1450.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_2.n_946.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_2.n_946.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_3.n_913.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_3.n_913.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_4.n_870.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_4.n_870.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_5.n_706.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_5.n_706.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_6.n_672.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_6.n_672.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_7.n_666.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_7.n_666.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_8.n_637.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_8.n_637.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_9.n_442.PWM.meme motif-alignments-all-vs-all/SP3/SP3-201-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_9.n_442.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_0.n_11128.PWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_0.n_11128.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_10.n_434.PWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_10.n_434.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_11.n_433.PWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_11.n_433.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_12.n_413.PWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_12.n_413.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_13.n_326.PWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_13.n_326.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_14.n_261.PWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_14.n_261.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_15.n_201.PWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_15.n_201.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_16.n_45.PWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_16.n_45.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_17.n_29.PWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_17.n_29.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_18.n_24.PWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_18.n_24.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_1.n_1450.PWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_1.n_1450.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_2.n_946.PWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_2.n_946.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_3.n_913.PWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_3.n_913.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_4.n_870.PWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_4.n_870.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_5.n_706.PWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_5.n_706.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_6.n_672.PWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_6.n_672.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_7.n_666.PWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_7.n_666.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_8.n_637.PWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_8.n_637.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP3-205/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_9.n_442.PWM.meme motif-alignments-all-vs-all/SP3/SP3-205-vs-SP3-HEK293-ENCSR141PZA.bestfold.profile.pattern_9.n_442.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_0.n_9417.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_0.n_9417.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_10.n_289.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_10.n_289.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_11.n_187.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_11.n_187.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_12.n_150.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_12.n_150.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_13.n_146.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_13.n_146.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_14.n_138.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_14.n_138.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_15.n_60.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_15.n_60.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_16.n_26.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_16.n_26.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_17.n_23.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_17.n_23.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_1.n_2222.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_1.n_2222.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_2.n_1768.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_2.n_1768.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_3.n_1325.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_3.n_1325.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_4.n_1184.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_4.n_1184.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_5.n_984.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_5.n_984.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_6.n_618.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_6.n_618.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_7.n_601.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_7.n_601.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_8.n_473.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_8.n_473.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SP5-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_9.n_392.PWM.meme motif-alignments-all-vs-all/SP5/SP5-201-vs-SP5-HepG2-ENCSR019NPF.bestfold.profile.pattern_9.n_392.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_0.n_10172.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_0.n_10172.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_10.n_63.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_10.n_63.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_11.n_55.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_11.n_55.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_12.n_39.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_12.n_39.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_1.n_5365.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_1.n_5365.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_2.n_4138.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_2.n_4138.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_3.n_2645.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_3.n_2645.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_4.n_2412.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_4.n_2412.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_5.n_1898.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_5.n_1898.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_6.n_1717.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_6.n_1717.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_7.n_1432.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_7.n_1432.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_8.n_917.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_8.n_917.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_9.n_127.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-201-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_9.n_127.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_0.n_10172.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_0.n_10172.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_10.n_63.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_10.n_63.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_11.n_55.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_11.n_55.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_12.n_39.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_12.n_39.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_1.n_5365.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_1.n_5365.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_2.n_4138.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_2.n_4138.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_3.n_2645.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_3.n_2645.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_4.n_2412.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_4.n_2412.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_5.n_1898.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_5.n_1898.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_6.n_1717.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_6.n_1717.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_7.n_1432.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_7.n_1432.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_8.n_917.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_8.n_917.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/OSR2-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_9.n_127.PWM.meme motif-alignments-all-vs-all/OSR2/OSR2-203-vs-OSR2-HEK293-ENCSR324LTM.bestfold.profile.pattern_9.n_127.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_0.n_1536.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_0.n_1536.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_10.n_43.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_10.n_43.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_11.n_22.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_11.n_22.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_1.n_720.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_1.n_720.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_2.n_260.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_2.n_260.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_3.n_188.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_3.n_188.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_4.n_122.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_4.n_122.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_5.n_119.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_5.n_119.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_6.n_90.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_6.n_90.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_7.n_85.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_7.n_85.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_8.n_65.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_8.n_65.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_9.n_56.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_9.n_56.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_0.n_982.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_0.n_982.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_10.n_49.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_10.n_49.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_11.n_46.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_11.n_46.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_12.n_45.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_12.n_45.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_13.n_43.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_13.n_43.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_14.n_32.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_14.n_32.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_15.n_22.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_15.n_22.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_1.n_127.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_1.n_127.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_2.n_113.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_2.n_113.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_3.n_100.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_3.n_100.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_4.n_97.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_4.n_97.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_5.n_95.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_5.n_95.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_6.n_81.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_6.n_81.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_7.n_78.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_7.n_78.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_8.n_74.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_8.n_74.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_9.n_59.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_9.n_59.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_0.n_11533.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_0.n_11533.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_10.n_457.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_10.n_457.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_11.n_314.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_11.n_314.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_12.n_272.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_12.n_272.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_13.n_269.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_13.n_269.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_14.n_228.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_14.n_228.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_15.n_224.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_15.n_224.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_16.n_208.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_16.n_208.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_17.n_162.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_17.n_162.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_18.n_128.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_18.n_128.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_19.n_117.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_19.n_117.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_1.n_3137.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_1.n_3137.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_20.n_114.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_20.n_114.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_21.n_113.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_21.n_113.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_22.n_105.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_22.n_105.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_23.n_93.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_23.n_93.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_24.n_90.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_24.n_90.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_25.n_62.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_25.n_62.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_26.n_55.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_26.n_55.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_27.n_53.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_27.n_53.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_28.n_47.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_28.n_47.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_29.n_46.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_29.n_46.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_2.n_3053.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_2.n_3053.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_30.n_44.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_30.n_44.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_31.n_36.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_31.n_36.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_32.n_34.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_32.n_34.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_33.n_32.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_33.n_32.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_34.n_20.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_34.n_20.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_35.n_20.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_35.n_20.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_3.n_1844.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_3.n_1844.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_4.n_1740.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_4.n_1740.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_5.n_1306.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_5.n_1306.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_6.n_734.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_6.n_734.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_7.n_653.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_7.n_653.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_8.n_497.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_8.n_497.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_9.n_461.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_9.n_461.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_0.n_876.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_0.n_876.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_10.n_24.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_10.n_24.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_11.n_21.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_11.n_21.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_1.n_166.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_1.n_166.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_2.n_94.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_2.n_94.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_3.n_59.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_3.n_59.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_4.n_51.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_4.n_51.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_5.n_48.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_5.n_48.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_6.n_46.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_6.n_46.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_7.n_43.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_7.n_43.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_8.n_37.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_8.n_37.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_9.n_37.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-201-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_9.n_37.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_0.n_1536.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_0.n_1536.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_10.n_43.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_10.n_43.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_11.n_22.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_11.n_22.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_1.n_720.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_1.n_720.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_2.n_260.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_2.n_260.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_3.n_188.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_3.n_188.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_4.n_122.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_4.n_122.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_5.n_119.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_5.n_119.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_6.n_90.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_6.n_90.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_7.n_85.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_7.n_85.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_8.n_65.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_8.n_65.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_9.n_56.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_9.n_56.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_0.n_982.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_0.n_982.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_10.n_49.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_10.n_49.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_11.n_46.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_11.n_46.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_12.n_45.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_12.n_45.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_13.n_43.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_13.n_43.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_14.n_32.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_14.n_32.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_15.n_22.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_15.n_22.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_1.n_127.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_1.n_127.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_2.n_113.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_2.n_113.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_3.n_100.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_3.n_100.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_4.n_97.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_4.n_97.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_5.n_95.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_5.n_95.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_6.n_81.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_6.n_81.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_7.n_78.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_7.n_78.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_8.n_74.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_8.n_74.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_9.n_59.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_9.n_59.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_0.n_11533.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_0.n_11533.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_10.n_457.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_10.n_457.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_11.n_314.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_11.n_314.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_12.n_272.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_12.n_272.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_13.n_269.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_13.n_269.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_14.n_228.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_14.n_228.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_15.n_224.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_15.n_224.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_16.n_208.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_16.n_208.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_17.n_162.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_17.n_162.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_18.n_128.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_18.n_128.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_19.n_117.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_19.n_117.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_1.n_3137.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_1.n_3137.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_20.n_114.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_20.n_114.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_21.n_113.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_21.n_113.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_22.n_105.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_22.n_105.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_23.n_93.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_23.n_93.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_24.n_90.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_24.n_90.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_25.n_62.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_25.n_62.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_26.n_55.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_26.n_55.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_27.n_53.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_27.n_53.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_28.n_47.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_28.n_47.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_29.n_46.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_29.n_46.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_2.n_3053.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_2.n_3053.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_30.n_44.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_30.n_44.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_31.n_36.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_31.n_36.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_32.n_34.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_32.n_34.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_33.n_32.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_33.n_32.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_34.n_20.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_34.n_20.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_35.n_20.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_35.n_20.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_3.n_1844.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_3.n_1844.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_4.n_1740.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_4.n_1740.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_5.n_1306.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_5.n_1306.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_6.n_734.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_6.n_734.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_7.n_653.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_7.n_653.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_8.n_497.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_8.n_497.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_9.n_461.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_9.n_461.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_0.n_876.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_0.n_876.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_10.n_24.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_10.n_24.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_11.n_21.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_11.n_21.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_1.n_166.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_1.n_166.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_2.n_94.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_2.n_94.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_3.n_59.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_3.n_59.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_4.n_51.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_4.n_51.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_5.n_48.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_5.n_48.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_6.n_46.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_6.n_46.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_7.n_43.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_7.n_43.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_8.n_37.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_8.n_37.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_9.n_37.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-206-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_9.n_37.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_0.n_1536.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_0.n_1536.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_10.n_43.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_10.n_43.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_11.n_22.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_11.n_22.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_1.n_720.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_1.n_720.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_2.n_260.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_2.n_260.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_3.n_188.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_3.n_188.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_4.n_122.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_4.n_122.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_5.n_119.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_5.n_119.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_6.n_90.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_6.n_90.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_7.n_85.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_7.n_85.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_8.n_65.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_8.n_65.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_9.n_56.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-GM12878-ENCSR439WAF.bestfold.profile.pattern_9.n_56.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_0.n_982.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_0.n_982.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_10.n_49.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_10.n_49.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_11.n_46.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_11.n_46.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_12.n_45.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_12.n_45.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_13.n_43.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_13.n_43.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_14.n_32.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_14.n_32.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_15.n_22.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_15.n_22.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_1.n_127.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_1.n_127.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_2.n_113.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_2.n_113.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_3.n_100.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_3.n_100.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_4.n_97.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_4.n_97.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_5.n_95.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_5.n_95.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_6.n_81.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_6.n_81.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_7.n_78.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_7.n_78.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_8.n_74.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_8.n_74.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_9.n_59.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR003GUC.bestfold.profile.pattern_9.n_59.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_0.n_11533.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_0.n_11533.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_10.n_457.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_10.n_457.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_11.n_314.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_11.n_314.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_12.n_272.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_12.n_272.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_13.n_269.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_13.n_269.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_14.n_228.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_14.n_228.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_15.n_224.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_15.n_224.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_16.n_208.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_16.n_208.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_17.n_162.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_17.n_162.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_18.n_128.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_18.n_128.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_19.n_117.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_19.n_117.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_1.n_3137.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_1.n_3137.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_20.n_114.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_20.n_114.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_21.n_113.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_21.n_113.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_22.n_105.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_22.n_105.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_23.n_93.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_23.n_93.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_24.n_90.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_24.n_90.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_25.n_62.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_25.n_62.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_26.n_55.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_26.n_55.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_27.n_53.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_27.n_53.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_28.n_47.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_28.n_47.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_29.n_46.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_29.n_46.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_2.n_3053.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_2.n_3053.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_30.n_44.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_30.n_44.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_31.n_36.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_31.n_36.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_32.n_34.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_32.n_34.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_33.n_32.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_33.n_32.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_34.n_20.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_34.n_20.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_35.n_20.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_35.n_20.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_3.n_1844.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_3.n_1844.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_4.n_1740.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_4.n_1740.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_5.n_1306.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_5.n_1306.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_6.n_734.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_6.n_734.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_7.n_653.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_7.n_653.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_8.n_497.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_8.n_497.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_9.n_461.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-K562-ENCSR731LHZ.bestfold.profile.pattern_9.n_461.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_0.n_876.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_0.n_876.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_10.n_24.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_10.n_24.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_11.n_21.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_11.n_21.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_1.n_166.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_1.n_166.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_2.n_94.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_2.n_94.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_3.n_59.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_3.n_59.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_4.n_51.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_4.n_51.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_5.n_48.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_5.n_48.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_6.n_46.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_6.n_46.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_7.n_43.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_7.n_43.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_8.n_37.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_8.n_37.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/E4F1-209/results.PFM.meme TFMoDiSCOtoMEME-files-2/E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_9.n_37.PWM.meme motif-alignments-all-vs-all/E4F1/E4F1-209-vs-E4F1-MCF-7-ENCSR841YWU.bestfold.profile.pattern_9.n_37.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_0.n_839.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_0.n_839.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_10.n_269.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_10.n_269.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_11.n_263.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_11.n_263.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_12.n_260.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_12.n_260.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_13.n_250.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_13.n_250.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_14.n_248.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_14.n_248.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_15.n_244.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_15.n_244.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_16.n_224.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_16.n_224.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_17.n_218.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_17.n_218.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_18.n_207.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_18.n_207.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_19.n_196.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_19.n_196.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_1.n_597.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_1.n_597.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_20.n_195.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_20.n_195.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_21.n_188.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_21.n_188.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_22.n_186.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_22.n_186.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_23.n_185.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_23.n_185.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_24.n_185.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_24.n_185.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_25.n_182.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_25.n_182.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_26.n_177.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_26.n_177.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_27.n_173.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_27.n_173.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_28.n_168.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_28.n_168.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_29.n_160.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_29.n_160.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_2.n_492.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_2.n_492.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_30.n_149.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_30.n_149.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_31.n_145.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_31.n_145.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_32.n_120.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_32.n_120.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_33.n_106.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_33.n_106.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_34.n_98.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_34.n_98.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_35.n_91.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_35.n_91.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_36.n_69.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_36.n_69.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_3.n_435.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_3.n_435.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_4.n_413.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_4.n_413.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_5.n_352.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_5.n_352.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_6.n_322.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_6.n_322.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_7.n_304.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_7.n_304.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_8.n_298.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_8.n_298.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_9.n_283.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK344-Hughes_GR_models_ZIM3.bestfold.profile.pattern_9.n_283.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_0.n_1451.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_0.n_1451.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_10.n_661.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_10.n_661.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_11.n_617.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_11.n_617.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_12.n_607.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_12.n_607.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_13.n_607.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_13.n_607.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_14.n_590.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_14.n_590.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_15.n_575.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_15.n_575.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_16.n_537.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_16.n_537.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_17.n_490.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_17.n_490.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_18.n_466.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_18.n_466.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_19.n_466.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_19.n_466.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_1.n_922.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_1.n_922.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_20.n_432.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_20.n_432.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_21.n_410.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_21.n_410.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_22.n_386.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_22.n_386.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_23.n_385.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_23.n_385.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_24.n_369.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_24.n_369.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_25.n_342.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_25.n_342.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_26.n_341.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_26.n_341.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_27.n_331.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_27.n_331.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_28.n_328.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_28.n_328.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_29.n_320.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_29.n_320.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_2.n_824.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_2.n_824.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_30.n_270.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_30.n_270.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_31.n_261.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_31.n_261.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_32.n_222.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_32.n_222.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_33.n_76.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_33.n_76.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_34.n_76.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_34.n_76.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_35.n_74.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_35.n_74.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_36.n_68.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_36.n_68.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_37.n_26.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_37.n_26.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_3.n_797.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_3.n_797.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_4.n_787.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_4.n_787.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_5.n_782.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_5.n_782.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_6.n_728.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_6.n_728.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_7.n_707.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_7.n_707.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_8.n_695.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_8.n_695.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZIM3-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_9.n_664.PWM.meme motif-alignments-all-vs-all/ZIM3/ZIM3-201-vs-ZIM3-HEK345-ChipExo_models_ZIM3.bestfold.profile.pattern_9.n_664.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_0.n_2782.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_0.n_2782.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_10.n_174.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_10.n_174.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_11.n_171.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_11.n_171.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_12.n_164.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_12.n_164.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_13.n_157.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_13.n_157.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_14.n_131.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_14.n_131.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_15.n_126.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_15.n_126.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_16.n_124.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_16.n_124.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_17.n_113.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_17.n_113.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_18.n_83.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_18.n_83.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_19.n_80.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_19.n_80.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_1.n_2492.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_1.n_2492.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_20.n_45.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_20.n_45.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_21.n_41.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_21.n_41.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_22.n_30.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_22.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_23.n_28.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_23.n_28.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_24.n_27.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_24.n_27.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_2.n_1716.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_2.n_1716.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_3.n_1235.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_3.n_1235.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_4.n_1139.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_4.n_1139.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_5.n_728.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_5.n_728.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_6.n_399.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_6.n_399.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_7.n_328.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_7.n_328.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_8.n_273.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_8.n_273.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR000BQP.bestfold.profile.pattern_9.n_212.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR000BQP.bestfold.profile.pattern_9.n_212.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_0.n_2510.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_0.n_2510.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_10.n_32.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_10.n_32.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_11.n_25.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_11.n_25.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_12.n_22.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_12.n_22.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_13.n_20.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_13.n_20.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_1.n_2293.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_1.n_2293.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_2.n_1090.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_2.n_1090.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_3.n_770.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_3.n_770.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_4.n_313.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_4.n_313.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_5.n_158.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_5.n_158.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_6.n_156.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_6.n_156.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_7.n_90.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_7.n_90.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_8.n_53.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_8.n_53.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-A549-ENCSR892DRK.bestfold.profile.pattern_9.n_36.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-A549-ENCSR892DRK.bestfold.profile.pattern_9.n_36.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_0.n_2816.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_0.n_2816.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_10.n_33.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_10.n_33.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_11.n_32.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_11.n_32.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_1.n_1772.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_1.n_1772.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_2.n_1422.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_2.n_1422.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_3.n_565.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_3.n_565.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_4.n_206.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_4.n_206.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_5.n_117.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_5.n_117.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_6.n_105.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_6.n_105.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_7.n_68.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_7.n_68.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_8.n_65.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_8.n_65.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_9.n_63.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BGF.bestfold.profile.pattern_9.n_63.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_0.n_2450.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_0.n_2450.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_10.n_62.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_10.n_62.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_11.n_50.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_11.n_50.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_12.n_27.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_12.n_27.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_13.n_24.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_13.n_24.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_14.n_20.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_14.n_20.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_1.n_1269.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_1.n_1269.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_2.n_417.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_2.n_417.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_3.n_321.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_3.n_321.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_4.n_208.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_4.n_208.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_5.n_143.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_5.n_143.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_6.n_113.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_6.n_113.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_7.n_89.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_7.n_89.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_8.n_76.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_8.n_76.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_9.n_69.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-GM12878-ENCSR000BQS.bestfold.profile.pattern_9.n_69.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_0.n_5427.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_0.n_5427.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_10.n_93.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_10.n_93.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_11.n_65.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_11.n_65.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_12.n_61.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_12.n_61.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_13.n_50.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_13.n_50.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_14.n_38.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_14.n_38.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_15.n_30.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_15.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_16.n_23.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_16.n_23.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_17.n_22.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_17.n_22.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_1.n_4828.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_1.n_4828.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_2.n_1837.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_2.n_1837.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_3.n_1575.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_3.n_1575.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_4.n_510.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_4.n_510.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_5.n_304.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_5.n_304.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_6.n_302.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_6.n_302.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_7.n_109.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_7.n_109.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_8.n_103.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_8.n_103.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-H1-ENCSR000BHM.bestfold.profile.pattern_9.n_96.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-H1-ENCSR000BHM.bestfold.profile.pattern_9.n_96.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_0.n_2228.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_0.n_2228.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_1.n_1059.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_1.n_1059.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_2.n_183.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_2.n_183.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_3.n_182.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_3.n_182.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_4.n_174.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_4.n_174.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_5.n_114.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_5.n_114.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_6.n_30.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HCT116-ENCSR000BVI.bestfold.profile.pattern_6.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_0.n_5234.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_0.n_5234.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_10.n_133.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_10.n_133.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_11.n_124.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_11.n_124.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_12.n_99.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_12.n_99.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_13.n_72.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_13.n_72.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_14.n_55.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_14.n_55.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_15.n_50.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_15.n_50.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_16.n_44.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_16.n_44.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_17.n_43.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_17.n_43.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_18.n_43.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_18.n_43.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_19.n_42.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_19.n_42.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_1.n_4531.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_1.n_4531.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_20.n_40.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_20.n_40.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_21.n_29.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_21.n_29.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_22.n_28.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_22.n_28.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_23.n_21.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_23.n_21.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_2.n_3835.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_2.n_3835.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_3.n_581.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_3.n_581.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_4.n_350.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_4.n_350.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_5.n_327.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_5.n_327.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_6.n_250.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_6.n_250.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_7.n_245.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_7.n_245.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_8.n_218.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_8.n_218.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_9.n_141.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HEK293-ENCSR896UBV.bestfold.profile.pattern_9.n_141.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_0.n_1578.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_0.n_1578.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_1.n_930.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_1.n_930.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_2.n_854.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_2.n_854.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_3.n_172.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_3.n_172.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_4.n_170.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_4.n_170.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_5.n_33.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_5.n_33.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_6.n_20.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BJL.bestfold.profile.pattern_6.n_20.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_0.n_2822.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_0.n_2822.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_10.n_286.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_10.n_286.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_11.n_222.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_11.n_222.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_12.n_191.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_12.n_191.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_13.n_173.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_13.n_173.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_14.n_149.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_14.n_149.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_15.n_137.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_15.n_137.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_16.n_119.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_16.n_119.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_17.n_119.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_17.n_119.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_18.n_117.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_18.n_117.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_19.n_92.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_19.n_92.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_1.n_1740.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_1.n_1740.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_20.n_89.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_20.n_89.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_21.n_87.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_21.n_87.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_22.n_66.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_22.n_66.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_23.n_58.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_23.n_58.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_24.n_49.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_24.n_49.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_25.n_21.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_25.n_21.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_2.n_1573.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_2.n_1573.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_3.n_1258.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_3.n_1258.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_4.n_970.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_4.n_970.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_5.n_852.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_5.n_852.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_6.n_679.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_6.n_679.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_7.n_438.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_7.n_438.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_8.n_436.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_8.n_436.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_9.n_313.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-HepG2-ENCSR000BOT.bestfold.profile.pattern_9.n_313.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_0.n_4554.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_0.n_4554.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_10.n_92.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_10.n_92.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_11.n_60.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_11.n_60.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_12.n_59.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_12.n_59.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_13.n_39.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_13.n_39.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_14.n_31.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_14.n_31.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_1.n_3576.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_1.n_3576.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_2.n_515.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_2.n_515.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_3.n_404.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_3.n_404.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_4.n_398.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_4.n_398.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_5.n_260.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_5.n_260.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_6.n_237.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_6.n_237.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_7.n_135.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_7.n_135.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_8.n_108.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_8.n_108.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_9.n_100.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Ishikawa-ENCSR000BUU.bestfold.profile.pattern_9.n_100.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000ATM.bestfold.profile.pattern_0.n_1675.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000ATM.bestfold.profile.pattern_0.n_1675.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000ATM.bestfold.profile.pattern_10.n_23.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000ATM.bestfold.profile.pattern_10.n_23.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000ATM.bestfold.profile.pattern_1.n_1673.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000ATM.bestfold.profile.pattern_1.n_1673.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000ATM.bestfold.profile.pattern_2.n_1423.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000ATM.bestfold.profile.pattern_2.n_1423.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000ATM.bestfold.profile.pattern_3.n_1311.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000ATM.bestfold.profile.pattern_3.n_1311.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000ATM.bestfold.profile.pattern_4.n_190.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000ATM.bestfold.profile.pattern_4.n_190.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000ATM.bestfold.profile.pattern_5.n_122.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000ATM.bestfold.profile.pattern_5.n_122.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000ATM.bestfold.profile.pattern_6.n_117.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000ATM.bestfold.profile.pattern_6.n_117.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000ATM.bestfold.profile.pattern_7.n_78.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000ATM.bestfold.profile.pattern_7.n_78.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000ATM.bestfold.profile.pattern_8.n_71.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000ATM.bestfold.profile.pattern_8.n_71.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000ATM.bestfold.profile.pattern_9.n_69.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000ATM.bestfold.profile.pattern_9.n_69.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_0.n_7380.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_0.n_7380.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_10.n_205.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_10.n_205.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_11.n_184.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_11.n_184.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_12.n_104.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_12.n_104.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_13.n_97.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_13.n_97.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_14.n_91.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_14.n_91.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_15.n_81.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_15.n_81.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_16.n_63.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_16.n_63.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_17.n_37.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_17.n_37.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_18.n_28.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_18.n_28.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_19.n_25.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_19.n_25.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_1.n_4770.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_1.n_4770.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_2.n_4398.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_2.n_4398.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_3.n_2181.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_3.n_2181.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_4.n_713.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_4.n_713.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_5.n_674.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_5.n_674.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_6.n_531.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_6.n_531.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_7.n_334.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_7.n_334.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_8.n_315.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_8.n_315.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR000BMW.bestfold.profile.pattern_9.n_227.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR000BMW.bestfold.profile.pattern_9.n_227.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_0.n_1302.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_0.n_1302.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_10.n_45.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_10.n_45.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_11.n_42.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_11.n_42.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_12.n_31.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_12.n_31.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_13.n_30.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_13.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_14.n_22.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_14.n_22.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_1.n_865.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_1.n_865.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_2.n_532.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_2.n_532.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_3.n_346.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_3.n_346.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_4.n_137.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_4.n_137.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_5.n_123.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_5.n_123.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_6.n_121.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_6.n_121.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_7.n_80.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_7.n_80.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_8.n_47.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_8.n_47.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR054JMQ.bestfold.profile.pattern_9.n_46.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR054JMQ.bestfold.profile.pattern_9.n_46.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_0.n_15215.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_0.n_15215.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_10.n_70.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_10.n_70.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_11.n_64.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_11.n_64.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_12.n_55.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_12.n_55.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_13.n_45.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_13.n_45.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_14.n_40.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_14.n_40.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_15.n_37.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_15.n_37.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_16.n_36.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_16.n_36.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_1.n_3051.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_1.n_3051.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_2.n_1793.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_2.n_1793.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_3.n_698.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_3.n_698.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_4.n_271.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_4.n_271.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_5.n_270.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_5.n_270.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_6.n_253.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_6.n_253.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_7.n_241.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_7.n_241.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_8.n_133.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_8.n_133.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_9.n_78.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-K562-ENCSR137ZMQ.bestfold.profile.pattern_9.n_78.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_0.n_1746.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_0.n_1746.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_10.n_112.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_10.n_112.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_11.n_99.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_11.n_99.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_12.n_71.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_12.n_71.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_13.n_59.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_13.n_59.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_14.n_56.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_14.n_56.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_15.n_33.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_15.n_33.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_16.n_30.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_16.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_1.n_1627.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_1.n_1627.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_2.n_882.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_2.n_882.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_3.n_818.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_3.n_818.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_4.n_324.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_4.n_324.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_5.n_242.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_5.n_242.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_6.n_223.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_6.n_223.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_7.n_185.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_7.n_185.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_8.n_180.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_8.n_180.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-liver-ENCSR893QWP.bestfold.profile.pattern_9.n_130.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-liver-ENCSR893QWP.bestfold.profile.pattern_9.n_130.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_0.n_3706.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_0.n_3706.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_10.n_129.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_10.n_129.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_11.n_121.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_11.n_121.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_12.n_40.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_12.n_40.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_13.n_40.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_13.n_40.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_14.n_30.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_14.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_15.n_28.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_15.n_28.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_16.n_25.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_16.n_25.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_17.n_21.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_17.n_21.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_1.n_2391.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_1.n_2391.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_2.n_2230.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_2.n_2230.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_3.n_1836.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_3.n_1836.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_4.n_428.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_4.n_428.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_5.n_237.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_5.n_237.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_6.n_216.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_6.n_216.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_7.n_159.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_7.n_159.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_8.n_156.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_8.n_156.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_9.n_129.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-MCF-7-ENCSR000BSP.bestfold.profile.pattern_9.n_129.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_0.n_12988.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_0.n_12988.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_10.n_66.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_10.n_66.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_11.n_56.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_11.n_56.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_12.n_31.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_12.n_31.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_1.n_9869.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_1.n_9869.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_2.n_5863.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_2.n_5863.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_3.n_977.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_3.n_977.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_4.n_893.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_4.n_893.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_5.n_598.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_5.n_598.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_6.n_366.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_6.n_366.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_7.n_169.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_7.n_169.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_8.n_145.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_8.n_145.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_9.n_126.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-neural_cell-ENCSR000BTV.bestfold.profile.pattern_9.n_126.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_0.n_1871.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_0.n_1871.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_10.n_26.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_10.n_26.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_1.n_1840.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_1.n_1840.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_2.n_1321.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_2.n_1321.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_3.n_551.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_3.n_551.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_4.n_65.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_4.n_65.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_5.n_60.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_5.n_60.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_6.n_59.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_6.n_59.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_7.n_58.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_7.n_58.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_8.n_38.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_8.n_38.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_9.n_29.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BJO.bestfold.profile.pattern_9.n_29.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_0.n_1755.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_0.n_1755.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_10.n_25.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_10.n_25.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_1.n_1069.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_1.n_1069.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_2.n_991.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_2.n_991.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_3.n_138.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_3.n_138.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_4.n_106.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_4.n_106.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_5.n_74.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_5.n_74.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_6.n_34.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_6.n_34.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_7.n_29.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_7.n_29.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_8.n_27.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_8.n_27.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_9.n_27.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BPK.bestfold.profile.pattern_9.n_27.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_0.n_2840.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_0.n_2840.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_10.n_76.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_10.n_76.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_11.n_60.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_11.n_60.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_12.n_42.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_12.n_42.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_1.n_1291.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_1.n_1291.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_2.n_390.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_2.n_390.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_3.n_274.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_3.n_274.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_4.n_268.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_4.n_268.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_5.n_166.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_5.n_166.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_6.n_145.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_6.n_145.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_7.n_120.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_7.n_120.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_8.n_113.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_8.n_113.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_9.n_93.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-Panc1-ENCSR000BUP.bestfold.profile.pattern_9.n_93.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_0.n_6096.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_0.n_6096.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_10.n_84.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_10.n_84.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_11.n_56.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_11.n_56.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_12.n_52.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_12.n_52.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_13.n_32.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_13.n_32.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_14.n_22.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_14.n_22.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_15.n_20.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_15.n_20.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_1.n_3900.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_1.n_3900.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_2.n_3690.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_2.n_3690.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_3.n_467.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_3.n_467.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_4.n_274.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_4.n_274.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_5.n_167.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_5.n_167.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_6.n_126.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_6.n_126.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_7.n_115.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_7.n_115.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_8.n_96.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_8.n_96.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/REST-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_9.n_89.PWM.meme motif-alignments-all-vs-all/REST/REST-201-vs-REST-PFSK-1-ENCSR000BOX.bestfold.profile.pattern_9.n_89.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_0.n_487.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_0.n_487.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_1.n_92.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_1.n_92.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_2.n_75.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_2.n_75.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_3.n_55.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_3.n_55.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_4.n_37.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_4.n_37.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_5.n_34.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_5.n_34.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_6.n_25.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_6.n_25.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_7.n_21.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_7.n_21.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_0.n_2755.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_0.n_2755.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_10.n_244.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_10.n_244.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_11.n_242.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_11.n_242.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_12.n_166.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_12.n_166.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_13.n_148.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_13.n_148.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_14.n_91.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_14.n_91.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_15.n_89.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_15.n_89.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_16.n_43.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_16.n_43.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_1.n_2128.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_1.n_2128.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_2.n_1361.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_2.n_1361.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_3.n_499.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_3.n_499.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_4.n_489.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_4.n_489.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_5.n_407.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_5.n_407.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_6.n_383.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_6.n_383.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_7.n_368.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_7.n_368.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_8.n_362.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_8.n_362.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_9.n_286.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-201-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_9.n_286.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_0.n_487.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_0.n_487.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_1.n_92.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_1.n_92.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_2.n_75.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_2.n_75.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_3.n_55.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_3.n_55.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_4.n_37.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_4.n_37.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_5.n_34.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_5.n_34.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_6.n_25.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_6.n_25.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_7.n_21.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HEK293-ENCSR044FMM.bestfold.profile.pattern_7.n_21.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_0.n_2755.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_0.n_2755.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_10.n_244.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_10.n_244.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_11.n_242.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_11.n_242.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_12.n_166.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_12.n_166.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_13.n_148.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_13.n_148.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_14.n_91.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_14.n_91.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_15.n_89.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_15.n_89.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_16.n_43.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_16.n_43.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_1.n_2128.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_1.n_2128.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_2.n_1361.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_2.n_1361.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_3.n_499.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_3.n_499.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_4.n_489.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_4.n_489.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_5.n_407.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_5.n_407.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_6.n_383.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_6.n_383.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_7.n_368.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_7.n_368.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_8.n_362.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_8.n_362.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SALL2-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_9.n_286.PWM.meme motif-alignments-all-vs-all/SALL2/SALL2-204-vs-SALL2-HepG2-ENCSR062TDX.bestfold.profile.pattern_9.n_286.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_0.n_3572.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_0.n_3572.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_10.n_179.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_10.n_179.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_11.n_164.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_11.n_164.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_12.n_157.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_12.n_157.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_13.n_151.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_13.n_151.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_14.n_137.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_14.n_137.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_15.n_91.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_15.n_91.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_16.n_85.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_16.n_85.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_17.n_81.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_17.n_81.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_18.n_80.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_18.n_80.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_19.n_55.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_19.n_55.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_1.n_3467.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_1.n_3467.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_20.n_49.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_20.n_49.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_21.n_25.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_21.n_25.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_2.n_2533.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_2.n_2533.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_3.n_543.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_3.n_543.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_4.n_506.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_4.n_506.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_5.n_479.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_5.n_479.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_6.n_422.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_6.n_422.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_7.n_337.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_7.n_337.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_8.n_306.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_8.n_306.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF17-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_9.n_188.PWM.meme motif-alignments-all-vs-all/KLF17/KLF17-201-vs-KLF17-HEK293-ENCSR065WUF.bestfold.profile.pattern_9.n_188.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SNAI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_0.n_1018.PWM.meme motif-alignments-all-vs-all/SNAI1/SNAI1-201-vs-SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_0.n_1018.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SNAI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_10.n_182.PWM.meme motif-alignments-all-vs-all/SNAI1/SNAI1-201-vs-SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_10.n_182.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SNAI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_11.n_127.PWM.meme motif-alignments-all-vs-all/SNAI1/SNAI1-201-vs-SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_11.n_127.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SNAI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_12.n_73.PWM.meme motif-alignments-all-vs-all/SNAI1/SNAI1-201-vs-SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_12.n_73.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SNAI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_13.n_52.PWM.meme motif-alignments-all-vs-all/SNAI1/SNAI1-201-vs-SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_13.n_52.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SNAI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_14.n_37.PWM.meme motif-alignments-all-vs-all/SNAI1/SNAI1-201-vs-SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_14.n_37.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SNAI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_1.n_894.PWM.meme motif-alignments-all-vs-all/SNAI1/SNAI1-201-vs-SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_1.n_894.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SNAI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_2.n_601.PWM.meme motif-alignments-all-vs-all/SNAI1/SNAI1-201-vs-SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_2.n_601.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SNAI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_3.n_562.PWM.meme motif-alignments-all-vs-all/SNAI1/SNAI1-201-vs-SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_3.n_562.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SNAI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_4.n_296.PWM.meme motif-alignments-all-vs-all/SNAI1/SNAI1-201-vs-SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_4.n_296.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SNAI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_5.n_268.PWM.meme motif-alignments-all-vs-all/SNAI1/SNAI1-201-vs-SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_5.n_268.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SNAI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_6.n_249.PWM.meme motif-alignments-all-vs-all/SNAI1/SNAI1-201-vs-SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_6.n_249.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SNAI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_7.n_247.PWM.meme motif-alignments-all-vs-all/SNAI1/SNAI1-201-vs-SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_7.n_247.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SNAI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_8.n_204.PWM.meme motif-alignments-all-vs-all/SNAI1/SNAI1-201-vs-SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_8.n_204.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SNAI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_9.n_184.PWM.meme motif-alignments-all-vs-all/SNAI1/SNAI1-201-vs-SNAI1-HepG2-ENCSR188EMJ.bestfold.profile.pattern_9.n_184.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_0.n_2268.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_0.n_2268.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_10.n_164.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_10.n_164.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_11.n_117.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_11.n_117.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_12.n_32.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_12.n_32.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_13.n_30.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_13.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_14.n_22.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_14.n_22.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_1.n_993.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_1.n_993.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_2.n_870.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_2.n_870.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_3.n_677.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_3.n_677.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_4.n_669.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_4.n_669.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_5.n_460.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_5.n_460.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_6.n_371.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_6.n_371.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_7.n_351.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_7.n_351.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_8.n_330.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_8.n_330.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_9.n_166.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_9.n_166.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_0.n_4065.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_0.n_4065.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_10.n_513.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_10.n_513.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_11.n_482.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_11.n_482.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_12.n_438.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_12.n_438.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_13.n_379.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_13.n_379.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_14.n_288.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_14.n_288.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_15.n_240.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_15.n_240.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_16.n_239.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_16.n_239.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_17.n_221.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_17.n_221.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_18.n_183.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_18.n_183.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_19.n_109.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_19.n_109.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_1.n_3133.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_1.n_3133.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_20.n_79.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_20.n_79.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_21.n_56.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_21.n_56.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_22.n_49.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_22.n_49.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_23.n_27.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_23.n_27.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_24.n_24.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_24.n_24.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_25.n_22.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_25.n_22.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_2.n_2911.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_2.n_2911.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_3.n_2147.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_3.n_2147.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_4.n_1663.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_4.n_1663.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_5.n_1122.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_5.n_1122.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_6.n_849.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_6.n_849.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_7.n_638.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_7.n_638.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_8.n_592.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_8.n_592.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_9.n_564.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_9.n_564.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_0.n_182.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_0.n_182.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_10.n_63.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_10.n_63.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_11.n_62.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_11.n_62.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_12.n_47.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_12.n_47.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_13.n_33.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_13.n_33.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_14.n_30.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_14.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_15.n_29.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_15.n_29.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_1.n_181.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_1.n_181.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_2.n_160.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_2.n_160.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_3.n_144.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_3.n_144.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_4.n_144.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_4.n_144.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_5.n_129.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_5.n_129.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_6.n_117.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_6.n_117.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_7.n_95.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_7.n_95.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_8.n_79.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_8.n_79.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_9.n_78.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_9.n_78.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_0.n_13564.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_0.n_13564.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_10.n_29.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_10.n_29.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_1.n_6428.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_1.n_6428.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_2.n_1253.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_2.n_1253.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_3.n_1194.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_3.n_1194.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_4.n_951.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_4.n_951.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_5.n_114.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_5.n_114.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_6.n_105.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_6.n_105.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_7.n_30.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_7.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_8.n_30.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_8.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_9.n_29.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-201-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_9.n_29.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_0.n_2268.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_0.n_2268.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_10.n_164.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_10.n_164.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_11.n_117.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_11.n_117.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_12.n_32.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_12.n_32.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_13.n_30.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_13.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_14.n_22.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_14.n_22.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_1.n_993.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_1.n_993.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_2.n_870.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_2.n_870.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_3.n_677.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_3.n_677.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_4.n_669.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_4.n_669.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_5.n_460.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_5.n_460.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_6.n_371.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_6.n_371.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_7.n_351.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_7.n_351.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_8.n_330.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_8.n_330.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_9.n_166.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HEK293-ENCSR397DQC.bestfold.profile.pattern_9.n_166.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_0.n_4065.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_0.n_4065.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_10.n_513.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_10.n_513.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_11.n_482.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_11.n_482.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_12.n_438.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_12.n_438.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_13.n_379.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_13.n_379.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_14.n_288.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_14.n_288.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_15.n_240.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_15.n_240.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_16.n_239.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_16.n_239.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_17.n_221.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_17.n_221.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_18.n_183.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_18.n_183.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_19.n_109.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_19.n_109.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_1.n_3133.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_1.n_3133.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_20.n_79.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_20.n_79.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_21.n_56.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_21.n_56.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_22.n_49.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_22.n_49.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_23.n_27.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_23.n_27.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_24.n_24.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_24.n_24.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_25.n_22.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_25.n_22.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_2.n_2911.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_2.n_2911.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_3.n_2147.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_3.n_2147.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_4.n_1663.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_4.n_1663.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_5.n_1122.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_5.n_1122.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_6.n_849.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_6.n_849.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_7.n_638.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_7.n_638.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_8.n_592.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_8.n_592.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_9.n_564.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR009KLQ.bestfold.profile.pattern_9.n_564.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_0.n_182.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_0.n_182.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_10.n_63.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_10.n_63.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_11.n_62.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_11.n_62.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_12.n_47.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_12.n_47.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_13.n_33.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_13.n_33.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_14.n_30.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_14.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_15.n_29.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_15.n_29.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_1.n_181.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_1.n_181.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_2.n_160.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_2.n_160.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_3.n_144.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_3.n_144.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_4.n_144.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_4.n_144.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_5.n_129.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_5.n_129.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_6.n_117.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_6.n_117.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_7.n_95.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_7.n_95.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_8.n_79.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_8.n_79.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_9.n_78.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-HepG2-ENCSR913KJZ.bestfold.profile.pattern_9.n_78.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_0.n_13564.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_0.n_13564.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_10.n_29.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_10.n_29.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_1.n_6428.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_1.n_6428.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_2.n_1253.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_2.n_1253.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_3.n_1194.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_3.n_1194.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_4.n_951.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_4.n_951.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_5.n_114.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_5.n_114.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_6.n_105.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_6.n_105.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_7.n_30.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_7.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_8.n_30.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_8.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF16-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_9.n_29.PWM.meme motif-alignments-all-vs-all/KLF16/KLF16-203-vs-KLF16-K562-ENCSR760UVO.bestfold.profile.pattern_9.n_29.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_0.n_819.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_0.n_819.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_1.n_812.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_1.n_812.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_2.n_425.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_2.n_425.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_3.n_224.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_3.n_224.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_4.n_197.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_4.n_197.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_5.n_154.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_5.n_154.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_6.n_100.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_6.n_100.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_7.n_32.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_7.n_32.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_8.n_25.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_8.n_25.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_9.n_22.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_9.n_22.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_0.n_230.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_0.n_230.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_10.n_27.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_10.n_27.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_1.n_142.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_1.n_142.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_2.n_139.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_2.n_139.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_3.n_131.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_3.n_131.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_4.n_97.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_4.n_97.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_5.n_93.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_5.n_93.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_6.n_74.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_6.n_74.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_7.n_68.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_7.n_68.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_8.n_53.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_8.n_53.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_9.n_30.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_9.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_0.n_4756.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_0.n_4756.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_1.n_484.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_1.n_484.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_2.n_456.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_2.n_456.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_3.n_359.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_3.n_359.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_4.n_195.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_4.n_195.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_5.n_190.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_5.n_190.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_6.n_131.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_6.n_131.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_7.n_75.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_7.n_75.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_8.n_48.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_8.n_48.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_0.n_537.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_0.n_537.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_1.n_513.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_1.n_513.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_2.n_505.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-201-vs-ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_2.n_505.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_0.n_819.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_0.n_819.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_1.n_812.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_1.n_812.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_2.n_425.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_2.n_425.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_3.n_224.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_3.n_224.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_4.n_197.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_4.n_197.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_5.n_154.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_5.n_154.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_6.n_100.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_6.n_100.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_7.n_32.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_7.n_32.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_8.n_25.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_8.n_25.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_9.n_22.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HEK293-ENCSR927UJQ.bestfold.profile.pattern_9.n_22.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_0.n_230.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_0.n_230.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_10.n_27.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_10.n_27.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_1.n_142.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_1.n_142.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_2.n_139.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_2.n_139.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_3.n_131.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_3.n_131.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_4.n_97.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_4.n_97.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_5.n_93.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_5.n_93.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_6.n_74.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_6.n_74.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_7.n_68.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_7.n_68.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_8.n_53.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_8.n_53.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_9.n_30.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-HepG2-ENCSR331HWO.bestfold.profile.pattern_9.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_0.n_4756.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_0.n_4756.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_1.n_484.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_1.n_484.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_2.n_456.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_2.n_456.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_3.n_359.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_3.n_359.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_4.n_195.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_4.n_195.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_5.n_190.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_5.n_190.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_6.n_131.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_6.n_131.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_7.n_75.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_7.n_75.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_8.n_48.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-K562-ENCSR166BAY.bestfold.profile.pattern_8.n_48.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_0.n_537.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_0.n_537.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_1.n_513.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_1.n_513.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/ZBTB1-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_2.n_505.PWM.meme motif-alignments-all-vs-all/ZBTB1/ZBTB1-203-vs-ZBTB1-MCF-7-ENCSR309ELI.bestfold.profile.pattern_2.n_505.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_0.n_637.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_0.n_637.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_10.n_40.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_10.n_40.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_11.n_33.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_11.n_33.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_12.n_30.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_12.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_1.n_94.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_1.n_94.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_2.n_90.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_2.n_90.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_3.n_89.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_3.n_89.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_4.n_68.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_4.n_68.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_5.n_61.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_5.n_61.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_6.n_60.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_6.n_60.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_7.n_49.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_7.n_49.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_8.n_45.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_8.n_45.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_9.n_42.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_9.n_42.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_0.n_3328.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_0.n_3328.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_10.n_73.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_10.n_73.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_11.n_39.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_11.n_39.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_1.n_2552.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_1.n_2552.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_2.n_2443.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_2.n_2443.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_3.n_840.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_3.n_840.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_4.n_297.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_4.n_297.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_5.n_197.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_5.n_197.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_6.n_153.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_6.n_153.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_7.n_145.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_7.n_145.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_8.n_106.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_8.n_106.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_9.n_88.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_9.n_88.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_0.n_5352.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_0.n_5352.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_10.n_69.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_10.n_69.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_11.n_52.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_11.n_52.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_12.n_48.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_12.n_48.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_13.n_38.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_13.n_38.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_14.n_31.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_14.n_31.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_1.n_2129.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_1.n_2129.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_2.n_1916.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_2.n_1916.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_3.n_1549.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_3.n_1549.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_4.n_396.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_4.n_396.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_5.n_227.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_5.n_227.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_6.n_152.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_6.n_152.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_7.n_114.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_7.n_114.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_8.n_93.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_8.n_93.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_9.n_89.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-201-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_9.n_89.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_0.n_637.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_0.n_637.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_10.n_40.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_10.n_40.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_11.n_33.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_11.n_33.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_12.n_30.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_12.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_1.n_94.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_1.n_94.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_2.n_90.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_2.n_90.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_3.n_89.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_3.n_89.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_4.n_68.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_4.n_68.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_5.n_61.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_5.n_61.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_6.n_60.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_6.n_60.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_7.n_49.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_7.n_49.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_8.n_45.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_8.n_45.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_9.n_42.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_9.n_42.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_0.n_3328.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_0.n_3328.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_10.n_73.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_10.n_73.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_11.n_39.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_11.n_39.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_1.n_2552.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_1.n_2552.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_2.n_2443.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_2.n_2443.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_3.n_840.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_3.n_840.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_4.n_297.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_4.n_297.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_5.n_197.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_5.n_197.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_6.n_153.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_6.n_153.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_7.n_145.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_7.n_145.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_8.n_106.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_8.n_106.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_9.n_88.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_9.n_88.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_0.n_5352.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_0.n_5352.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_10.n_69.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_10.n_69.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_11.n_52.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_11.n_52.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_12.n_48.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_12.n_48.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_13.n_38.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_13.n_38.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_14.n_31.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_14.n_31.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_1.n_2129.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_1.n_2129.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_2.n_1916.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_2.n_1916.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_3.n_1549.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_3.n_1549.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_4.n_396.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_4.n_396.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_5.n_227.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_5.n_227.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_6.n_152.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_6.n_152.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_7.n_114.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_7.n_114.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_8.n_93.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_8.n_93.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-208/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_9.n_89.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-208-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_9.n_89.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_0.n_637.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_0.n_637.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_10.n_40.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_10.n_40.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_11.n_33.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_11.n_33.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_12.n_30.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_12.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_1.n_94.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_1.n_94.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_2.n_90.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_2.n_90.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_3.n_89.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_3.n_89.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_4.n_68.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_4.n_68.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_5.n_61.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_5.n_61.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_6.n_60.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_6.n_60.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_7.n_49.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_7.n_49.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_8.n_45.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_8.n_45.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_9.n_42.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-GM12878-ENCSR748SQL.bestfold.profile.pattern_9.n_42.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_0.n_3328.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_0.n_3328.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_10.n_73.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_10.n_73.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_11.n_39.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_11.n_39.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_1.n_2552.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_1.n_2552.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_2.n_2443.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_2.n_2443.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_3.n_840.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_3.n_840.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_4.n_297.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_4.n_297.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_5.n_197.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_5.n_197.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_6.n_153.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_6.n_153.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_7.n_145.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_7.n_145.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_8.n_106.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_8.n_106.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_9.n_88.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-HepG2-ENCSR011INW.bestfold.profile.pattern_9.n_88.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_0.n_5352.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_0.n_5352.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_10.n_69.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_10.n_69.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_11.n_52.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_11.n_52.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_12.n_48.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_12.n_48.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_13.n_38.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_13.n_38.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_14.n_31.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_14.n_31.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_1.n_2129.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_1.n_2129.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_2.n_1916.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_2.n_1916.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_3.n_1549.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_3.n_1549.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_4.n_396.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_4.n_396.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_5.n_227.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_5.n_227.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_6.n_152.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_6.n_152.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_7.n_114.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_7.n_114.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_8.n_93.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_8.n_93.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM15-212/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_9.n_89.PWM.meme motif-alignments-all-vs-all/PRDM15/PRDM15-212-vs-PRDM15-WTC11-ENCSR092DCD.bestfold.profile.pattern_9.n_89.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_0.n_6045.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_0.n_6045.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_10.n_92.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_10.n_92.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_11.n_59.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_11.n_59.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_1.n_1064.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_1.n_1064.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_2.n_523.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_2.n_523.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_3.n_518.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_3.n_518.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_4.n_501.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_4.n_501.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_5.n_372.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_5.n_372.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_6.n_291.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_6.n_291.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_7.n_285.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_7.n_285.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_8.n_213.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_8.n_213.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_9.n_94.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HEK293-ENCSR445PDR.bestfold.profile.pattern_9.n_94.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_0.n_7550.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_0.n_7550.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_10.n_296.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_10.n_296.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_11.n_208.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_11.n_208.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_12.n_207.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_12.n_207.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_13.n_122.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_13.n_122.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_14.n_116.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_14.n_116.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_15.n_93.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_15.n_93.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_16.n_47.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_16.n_47.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_17.n_39.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_17.n_39.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_18.n_34.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_18.n_34.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_19.n_31.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_19.n_31.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_1.n_4394.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_1.n_4394.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_20.n_31.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_20.n_31.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_21.n_26.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_21.n_26.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_22.n_21.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_22.n_21.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_2.n_2797.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_2.n_2797.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_3.n_2629.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_3.n_2629.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_4.n_1863.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_4.n_1863.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_5.n_989.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_5.n_989.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_6.n_637.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_6.n_637.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_7.n_571.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_7.n_571.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_8.n_412.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_8.n_412.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GFI1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_9.n_348.PWM.meme motif-alignments-all-vs-all/GFI1/GFI1-201-vs-GFI1-HepG2-ENCSR849FVL.bestfold.profile.pattern_9.n_348.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_0.n_15287.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_0.n_15287.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_10.n_166.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_10.n_166.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_11.n_76.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_11.n_76.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_12.n_43.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_12.n_43.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_13.n_43.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_13.n_43.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_14.n_36.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_14.n_36.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_15.n_31.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_15.n_31.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_1.n_5805.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_1.n_5805.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_2.n_1566.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_2.n_1566.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_3.n_812.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_3.n_812.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_4.n_739.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_4.n_739.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_5.n_738.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_5.n_738.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_6.n_589.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_6.n_589.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_7.n_527.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_7.n_527.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_8.n_397.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_8.n_397.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_9.n_349.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HEK293-ENCSR223TAV.bestfold.profile.pattern_9.n_349.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_0.n_3305.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_0.n_3305.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_10.n_30.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_10.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_1.n_2195.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_1.n_2195.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_2.n_1319.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_2.n_1319.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_3.n_839.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_3.n_839.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_4.n_621.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_4.n_621.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_5.n_457.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_5.n_457.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_6.n_322.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_6.n_322.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_7.n_136.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_7.n_136.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_8.n_80.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_8.n_80.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_9.n_67.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-HepG2-ENCSR289PSX.bestfold.profile.pattern_9.n_67.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_0.n_13951.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_0.n_13951.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_10.n_102.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_10.n_102.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_11.n_58.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_11.n_58.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_12.n_48.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_12.n_48.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_13.n_31.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_13.n_31.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_14.n_28.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_14.n_28.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_15.n_22.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_15.n_22.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_1.n_4291.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_1.n_4291.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_2.n_1529.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_2.n_1529.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_3.n_1039.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_3.n_1039.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_4.n_896.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_4.n_896.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_5.n_733.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_5.n_733.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_6.n_610.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_6.n_610.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_7.n_227.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_7.n_227.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_8.n_152.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_8.n_152.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM10-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_9.n_116.PWM.meme motif-alignments-all-vs-all/PRDM10/PRDM10-201-vs-PRDM10-K562-ENCSR120MPG.bestfold.profile.pattern_9.n_116.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_0.n_1470.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-201-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_0.n_1470.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_1.n_1000.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-201-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_1.n_1000.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_2.n_923.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-201-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_2.n_923.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_3.n_425.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-201-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_3.n_425.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_4.n_312.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-201-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_4.n_312.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_5.n_305.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-201-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_5.n_305.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_6.n_220.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-201-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_6.n_220.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_7.n_175.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-201-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_7.n_175.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_8.n_90.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-201-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_8.n_90.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_9.n_83.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-201-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_9.n_83.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_0.n_1470.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-206-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_0.n_1470.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_1.n_1000.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-206-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_1.n_1000.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_2.n_923.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-206-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_2.n_923.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_3.n_425.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-206-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_3.n_425.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_4.n_312.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-206-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_4.n_312.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_5.n_305.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-206-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_5.n_305.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_6.n_220.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-206-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_6.n_220.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_7.n_175.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-206-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_7.n_175.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_8.n_90.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-206-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_8.n_90.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/DZIP1-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_9.n_83.PWM.meme motif-alignments-all-vs-all/DZIP1/DZIP1-206-vs-DZIP1-HepG2-ENCSR895KNN.bestfold.profile.pattern_9.n_83.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_0.n_468.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_0.n_468.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_10.n_56.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_10.n_56.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_1.n_399.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_1.n_399.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_2.n_300.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_2.n_300.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_3.n_247.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_3.n_247.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_4.n_171.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_4.n_171.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_5.n_169.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_5.n_169.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_6.n_153.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_6.n_153.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_7.n_97.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_7.n_97.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_8.n_84.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_8.n_84.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_9.n_61.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-HepG2-ENCSR194NVP.bestfold.profile.pattern_9.n_61.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_0.n_592.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_0.n_592.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_10.n_75.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_10.n_75.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_11.n_68.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_11.n_68.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_12.n_55.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_12.n_55.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_13.n_52.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_13.n_52.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_14.n_43.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_14.n_43.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_15.n_36.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_15.n_36.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_16.n_27.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_16.n_27.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_17.n_27.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_17.n_27.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_18.n_24.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_18.n_24.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_1.n_504.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_1.n_504.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_2.n_122.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_2.n_122.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_3.n_111.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_3.n_111.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_4.n_106.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_4.n_106.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_5.n_93.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_5.n_93.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_6.n_91.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_6.n_91.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_7.n_83.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_7.n_83.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_8.n_81.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_8.n_81.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/MTF1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_9.n_79.PWM.meme motif-alignments-all-vs-all/MTF1/MTF1-201-vs-MTF1-K562-ENCSR849LXI.bestfold.profile.pattern_9.n_79.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_0.n_544.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_0.n_544.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_10.n_299.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_10.n_299.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_11.n_275.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_11.n_275.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_12.n_226.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_12.n_226.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_13.n_220.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_13.n_220.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_14.n_183.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_14.n_183.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_15.n_173.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_15.n_173.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_16.n_171.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_16.n_171.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_17.n_148.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_17.n_148.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_18.n_121.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_18.n_121.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_19.n_118.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_19.n_118.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_1.n_463.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_1.n_463.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_20.n_95.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_20.n_95.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_21.n_90.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_21.n_90.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_22.n_65.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_22.n_65.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_23.n_56.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_23.n_56.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_24.n_34.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_24.n_34.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_2.n_448.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_2.n_448.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_3.n_440.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_3.n_440.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_4.n_425.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_4.n_425.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_5.n_411.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_5.n_411.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_6.n_389.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_6.n_389.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_7.n_354.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_7.n_354.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_8.n_318.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_8.n_318.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/KLF14-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_9.n_304.PWM.meme motif-alignments-all-vs-all/KLF14/KLF14-201-vs-KLF14-HEK305-Hughes_NB_models_KLF14.bestfold.profile.pattern_9.n_304.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/INSM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_0.n_3232.PWM.meme motif-alignments-all-vs-all/INSM2/INSM2-201-vs-INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_0.n_3232.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/INSM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_10.n_184.PWM.meme motif-alignments-all-vs-all/INSM2/INSM2-201-vs-INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_10.n_184.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/INSM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_11.n_122.PWM.meme motif-alignments-all-vs-all/INSM2/INSM2-201-vs-INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_11.n_122.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/INSM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_12.n_113.PWM.meme motif-alignments-all-vs-all/INSM2/INSM2-201-vs-INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_12.n_113.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/INSM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_13.n_63.PWM.meme motif-alignments-all-vs-all/INSM2/INSM2-201-vs-INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_13.n_63.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/INSM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_14.n_43.PWM.meme motif-alignments-all-vs-all/INSM2/INSM2-201-vs-INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_14.n_43.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/INSM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_15.n_23.PWM.meme motif-alignments-all-vs-all/INSM2/INSM2-201-vs-INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_15.n_23.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/INSM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_1.n_2957.PWM.meme motif-alignments-all-vs-all/INSM2/INSM2-201-vs-INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_1.n_2957.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/INSM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_2.n_2026.PWM.meme motif-alignments-all-vs-all/INSM2/INSM2-201-vs-INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_2.n_2026.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/INSM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_3.n_1830.PWM.meme motif-alignments-all-vs-all/INSM2/INSM2-201-vs-INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_3.n_1830.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/INSM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_4.n_774.PWM.meme motif-alignments-all-vs-all/INSM2/INSM2-201-vs-INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_4.n_774.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/INSM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_5.n_565.PWM.meme motif-alignments-all-vs-all/INSM2/INSM2-201-vs-INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_5.n_565.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/INSM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_6.n_480.PWM.meme motif-alignments-all-vs-all/INSM2/INSM2-201-vs-INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_6.n_480.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/INSM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_7.n_467.PWM.meme motif-alignments-all-vs-all/INSM2/INSM2-201-vs-INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_7.n_467.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/INSM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_8.n_293.PWM.meme motif-alignments-all-vs-all/INSM2/INSM2-201-vs-INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_8.n_293.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/INSM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_9.n_231.PWM.meme motif-alignments-all-vs-all/INSM2/INSM2-201-vs-INSM2-HEK293-ENCSR382GSF.bestfold.profile.pattern_9.n_231.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_0.n_124.PWM.meme motif-alignments-all-vs-all/PRDM9/PRDM9-201-vs-PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_0.n_124.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_1.n_77.PWM.meme motif-alignments-all-vs-all/PRDM9/PRDM9-201-vs-PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_1.n_77.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_2.n_59.PWM.meme motif-alignments-all-vs-all/PRDM9/PRDM9-201-vs-PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_2.n_59.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_3.n_59.PWM.meme motif-alignments-all-vs-all/PRDM9/PRDM9-201-vs-PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_3.n_59.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_4.n_43.PWM.meme motif-alignments-all-vs-all/PRDM9/PRDM9-201-vs-PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_4.n_43.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_5.n_41.PWM.meme motif-alignments-all-vs-all/PRDM9/PRDM9-201-vs-PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_5.n_41.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_6.n_39.PWM.meme motif-alignments-all-vs-all/PRDM9/PRDM9-201-vs-PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_6.n_39.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_7.n_37.PWM.meme motif-alignments-all-vs-all/PRDM9/PRDM9-201-vs-PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_7.n_37.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM9-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_8.n_30.PWM.meme motif-alignments-all-vs-all/PRDM9/PRDM9-201-vs-PRDM9-HEK315-ChipExo_models_PRDM9.bestfold.profile.pattern_8.n_30.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_0.n_1153.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_0.n_1153.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_10.n_84.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_10.n_84.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_11.n_74.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_11.n_74.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_12.n_58.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_12.n_58.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_13.n_55.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_13.n_55.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_14.n_50.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_14.n_50.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_15.n_48.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_15.n_48.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_16.n_43.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_16.n_43.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_17.n_26.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_17.n_26.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_1.n_906.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_1.n_906.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_2.n_720.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_2.n_720.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_3.n_666.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_3.n_666.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_4.n_325.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_4.n_325.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_5.n_182.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_5.n_182.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_6.n_137.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_6.n_137.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_7.n_121.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_7.n_121.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_8.n_118.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_8.n_118.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_9.n_103.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-201-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_9.n_103.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_0.n_1153.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_0.n_1153.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_10.n_84.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_10.n_84.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_11.n_74.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_11.n_74.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_12.n_58.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_12.n_58.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_13.n_55.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_13.n_55.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_14.n_50.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_14.n_50.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_15.n_48.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_15.n_48.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_16.n_43.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_16.n_43.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_17.n_26.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_17.n_26.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_1.n_906.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_1.n_906.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_2.n_720.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_2.n_720.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_3.n_666.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_3.n_666.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_4.n_325.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_4.n_325.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_5.n_182.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_5.n_182.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_6.n_137.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_6.n_137.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_7.n_121.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_7.n_121.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_8.n_118.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_8.n_118.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_9.n_103.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-202-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_9.n_103.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_0.n_1153.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_0.n_1153.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_10.n_84.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_10.n_84.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_11.n_74.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_11.n_74.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_12.n_58.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_12.n_58.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_13.n_55.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_13.n_55.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_14.n_50.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_14.n_50.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_15.n_48.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_15.n_48.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_16.n_43.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_16.n_43.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_17.n_26.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_17.n_26.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_1.n_906.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_1.n_906.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_2.n_720.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_2.n_720.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_3.n_666.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_3.n_666.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_4.n_325.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_4.n_325.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_5.n_182.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_5.n_182.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_6.n_137.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_6.n_137.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_7.n_121.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_7.n_121.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_8.n_118.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_8.n_118.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/GTF3A-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_9.n_103.PWM.meme motif-alignments-all-vs-all/GTF3A/GTF3A-207-vs-GTF3A-HepG2-ENCSR220AQM.bestfold.profile.pattern_9.n_103.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_0.n_8793.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_0.n_8793.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_10.n_961.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_10.n_961.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_11.n_427.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_11.n_427.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_12.n_417.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_12.n_417.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_13.n_356.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_13.n_356.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_14.n_321.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_14.n_321.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_15.n_320.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_15.n_320.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_16.n_227.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_16.n_227.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_17.n_157.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_17.n_157.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_18.n_143.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_18.n_143.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_19.n_48.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_19.n_48.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_1.n_3261.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_1.n_3261.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_20.n_38.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_20.n_38.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_21.n_29.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_21.n_29.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_2.n_3184.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_2.n_3184.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_3.n_2231.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_3.n_2231.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_4.n_1987.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_4.n_1987.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_5.n_1910.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_5.n_1910.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_6.n_1647.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_6.n_1647.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_7.n_1435.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_7.n_1435.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_8.n_1404.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_8.n_1404.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_9.n_1103.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK293-ENCSR892QHR.bestfold.profile.pattern_9.n_1103.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK314-Hughes_GR_models_PRDM6.bestfold.profile.pattern_0.n_67.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK314-Hughes_GR_models_PRDM6.bestfold.profile.pattern_0.n_67.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK314-Hughes_GR_models_PRDM6.bestfold.profile.pattern_1.n_56.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK314-Hughes_GR_models_PRDM6.bestfold.profile.pattern_1.n_56.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK314-Hughes_GR_models_PRDM6.bestfold.profile.pattern_2.n_50.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK314-Hughes_GR_models_PRDM6.bestfold.profile.pattern_2.n_50.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK314-Hughes_GR_models_PRDM6.bestfold.profile.pattern_3.n_44.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK314-Hughes_GR_models_PRDM6.bestfold.profile.pattern_3.n_44.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK314-Hughes_GR_models_PRDM6.bestfold.profile.pattern_4.n_38.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK314-Hughes_GR_models_PRDM6.bestfold.profile.pattern_4.n_38.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK314-Hughes_GR_models_PRDM6.bestfold.profile.pattern_5.n_38.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK314-Hughes_GR_models_PRDM6.bestfold.profile.pattern_5.n_38.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK314-Hughes_GR_models_PRDM6.bestfold.profile.pattern_6.n_35.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK314-Hughes_GR_models_PRDM6.bestfold.profile.pattern_6.n_35.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK314-Hughes_GR_models_PRDM6.bestfold.profile.pattern_7.n_31.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK314-Hughes_GR_models_PRDM6.bestfold.profile.pattern_7.n_31.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM6-HEK314-Hughes_GR_models_PRDM6.bestfold.profile.pattern_8.n_25.PWM.meme motif-alignments-all-vs-all/PRDM6/PRDM6-201-vs-PRDM6-HEK314-Hughes_GR_models_PRDM6.bestfold.profile.pattern_8.n_25.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_0.n_5773.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_0.n_5773.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_10.n_167.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_10.n_167.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_11.n_167.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_11.n_167.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_12.n_98.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_12.n_98.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_13.n_52.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_13.n_52.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_14.n_47.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_14.n_47.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_15.n_32.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_15.n_32.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_16.n_21.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_16.n_21.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_1.n_2418.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_1.n_2418.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_2.n_2364.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_2.n_2364.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_3.n_2033.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_3.n_2033.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_4.n_1366.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_4.n_1366.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_5.n_508.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_5.n_508.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_6.n_348.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_6.n_348.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_7.n_328.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_7.n_328.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_8.n_256.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_8.n_256.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_9.n_212.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-A549-ENCSR977FEF.bestfold.profile.pattern_9.n_212.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_0.n_16528.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_0.n_16528.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_10.n_399.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_10.n_399.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_11.n_346.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_11.n_346.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_12.n_344.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_12.n_344.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_13.n_311.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_13.n_311.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_14.n_301.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_14.n_301.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_15.n_276.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_15.n_276.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_16.n_236.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_16.n_236.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_17.n_234.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_17.n_234.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_18.n_217.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_18.n_217.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_19.n_208.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_19.n_208.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_1.n_1242.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_1.n_1242.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_20.n_191.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_20.n_191.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_21.n_129.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_21.n_129.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_22.n_122.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_22.n_122.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_23.n_111.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_23.n_111.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_24.n_73.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_24.n_73.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_25.n_49.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_25.n_49.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_26.n_40.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_26.n_40.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_27.n_29.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_27.n_29.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_2.n_1135.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_2.n_1135.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_3.n_905.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_3.n_905.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_4.n_723.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_4.n_723.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_5.n_631.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_5.n_631.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_6.n_626.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_6.n_626.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_7.n_484.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_7.n_484.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_8.n_466.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_8.n_466.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_9.n_443.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK293-ENCSR098YLE.bestfold.profile.pattern_9.n_443.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_0.n_324.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_0.n_324.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_10.n_135.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_10.n_135.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_11.n_133.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_11.n_133.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_12.n_131.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_12.n_131.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_13.n_123.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_13.n_123.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_14.n_123.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_14.n_123.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_15.n_102.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_15.n_102.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_16.n_97.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_16.n_97.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_17.n_82.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_17.n_82.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_18.n_68.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_18.n_68.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_19.n_63.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_19.n_63.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_1.n_279.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_1.n_279.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_2.n_242.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_2.n_242.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_3.n_220.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_3.n_220.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_4.n_212.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_4.n_212.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_5.n_173.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_5.n_173.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_6.n_164.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_6.n_164.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_7.n_161.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_7.n_161.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_8.n_140.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_8.n_140.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_9.n_136.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HEK313-Hughes_GR_models_PRDM1.bestfold.profile.pattern_9.n_136.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HeLa-S3-ENCSR000ECY.bestfold.profile.pattern_0.n_3545.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HeLa-S3-ENCSR000ECY.bestfold.profile.pattern_0.n_3545.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HeLa-S3-ENCSR000ECY.bestfold.profile.pattern_1.n_1614.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HeLa-S3-ENCSR000ECY.bestfold.profile.pattern_1.n_1614.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM1-HeLa-S3-ENCSR000ECY.bestfold.profile.pattern_2.n_1247.PWM.meme motif-alignments-all-vs-all/PRDM1/PRDM1-201-vs-PRDM1-HeLa-S3-ENCSR000ECY.bestfold.profile.pattern_2.n_1247.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM2-HEK293-ENCSR714LYA.bestfold.profile.pattern_0.n_465.PWM.meme motif-alignments-all-vs-all/PRDM2/PRDM2-201-vs-PRDM2-HEK293-ENCSR714LYA.bestfold.profile.pattern_0.n_465.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM2-HEK293-ENCSR714LYA.bestfold.profile.pattern_1.n_92.PWM.meme motif-alignments-all-vs-all/PRDM2/PRDM2-201-vs-PRDM2-HEK293-ENCSR714LYA.bestfold.profile.pattern_1.n_92.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM2-HEK293-ENCSR714LYA.bestfold.profile.pattern_2.n_61.PWM.meme motif-alignments-all-vs-all/PRDM2/PRDM2-201-vs-PRDM2-HEK293-ENCSR714LYA.bestfold.profile.pattern_2.n_61.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM2-HEK293-ENCSR714LYA.bestfold.profile.pattern_3.n_59.PWM.meme motif-alignments-all-vs-all/PRDM2/PRDM2-201-vs-PRDM2-HEK293-ENCSR714LYA.bestfold.profile.pattern_3.n_59.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM2-HEK293-ENCSR714LYA.bestfold.profile.pattern_4.n_46.PWM.meme motif-alignments-all-vs-all/PRDM2/PRDM2-201-vs-PRDM2-HEK293-ENCSR714LYA.bestfold.profile.pattern_4.n_46.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM2-HEK293-ENCSR714LYA.bestfold.profile.pattern_5.n_45.PWM.meme motif-alignments-all-vs-all/PRDM2/PRDM2-201-vs-PRDM2-HEK293-ENCSR714LYA.bestfold.profile.pattern_5.n_45.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/PRDM2-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/PRDM2-HEK293-ENCSR714LYA.bestfold.profile.pattern_6.n_25.PWM.meme motif-alignments-all-vs-all/PRDM2/PRDM2-201-vs-PRDM2-HEK293-ENCSR714LYA.bestfold.profile.pattern_6.n_25.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_0.n_15888.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_0.n_15888.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_1.n_131.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_1.n_131.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_2.n_71.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_2.n_71.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_3.n_61.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_3.n_61.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_4.n_44.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_4.n_44.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_5.n_38.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_5.n_38.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_6.n_31.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_6.n_31.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_7.n_26.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_7.n_26.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_8.n_25.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_8.n_25.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_9.n_20.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK293-ENCSR605MGM.bestfold.profile.pattern_9.n_20.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_0.n_1619.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_0.n_1619.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_10.n_669.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_10.n_669.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_11.n_644.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_11.n_644.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_12.n_642.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_12.n_642.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_13.n_634.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_13.n_634.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_14.n_614.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_14.n_614.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_15.n_610.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_15.n_610.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_16.n_597.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_16.n_597.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_17.n_559.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_17.n_559.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_18.n_536.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_18.n_536.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_19.n_529.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_19.n_529.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_1.n_1197.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_1.n_1197.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_20.n_523.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_20.n_523.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_21.n_486.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_21.n_486.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_22.n_482.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_22.n_482.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_23.n_478.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_23.n_478.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_24.n_464.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_24.n_464.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_25.n_454.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_25.n_454.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_26.n_454.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_26.n_454.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_27.n_452.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_27.n_452.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_28.n_450.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_28.n_450.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_29.n_354.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_29.n_354.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_2.n_1118.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_2.n_1118.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_30.n_339.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_30.n_339.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_31.n_338.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_31.n_338.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_32.n_337.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_32.n_337.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_33.n_331.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_33.n_331.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_34.n_328.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_34.n_328.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_35.n_322.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_35.n_322.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_36.n_298.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_36.n_298.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_37.n_295.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_37.n_295.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_38.n_294.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_38.n_294.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_39.n_288.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_39.n_288.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_3.n_989.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_3.n_989.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_40.n_278.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_40.n_278.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_41.n_273.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_41.n_273.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_42.n_270.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_42.n_270.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_43.n_268.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_43.n_268.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_44.n_264.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_44.n_264.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_45.n_250.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_45.n_250.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_46.n_242.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_46.n_242.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_47.n_199.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_47.n_199.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_48.n_198.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_48.n_198.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_49.n_167.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_49.n_167.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_4.n_958.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_4.n_958.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_50.n_162.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_50.n_162.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_51.n_157.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_51.n_157.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_52.n_138.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_52.n_138.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_53.n_37.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_53.n_37.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_5.n_880.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_5.n_880.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_6.n_810.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_6.n_810.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_7.n_687.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_7.n_687.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_8.n_686.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_8.n_686.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/SCRT1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_9.n_682.PWM.meme motif-alignments-all-vs-all/SCRT1/SCRT1-201-vs-SCRT1-HEK317-Hughes_GR_models_SCRT1.bestfold.profile.pattern_9.n_682.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_0.n_4104.PWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_0.n_4104.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_10.n_43.PWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_10.n_43.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_11.n_35.PWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_11.n_35.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_1.n_1183.PWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_1.n_1183.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_2.n_899.PWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_2.n_899.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_3.n_774.PWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_3.n_774.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_4.n_737.PWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_4.n_737.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_5.n_482.PWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_5.n_482.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_6.n_399.PWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_6.n_399.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_7.n_343.PWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_7.n_343.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_8.n_180.PWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_8.n_180.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6B-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_9.n_47.PWM.meme motif-alignments-all-vs-all/BCL6B/BCL6B-201-vs-BCL6B-HEK293-ENCSR673SGK.bestfold.profile.pattern_9.n_47.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_0.n_4104.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_0.n_4104.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_10.n_43.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_10.n_43.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_11.n_35.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_11.n_35.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_1.n_1183.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_1.n_1183.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_2.n_899.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_2.n_899.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_3.n_774.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_3.n_774.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_4.n_737.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_4.n_737.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_5.n_482.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_5.n_482.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_6.n_399.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_6.n_399.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_7.n_343.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_7.n_343.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_8.n_180.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_8.n_180.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_9.n_47.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_9.n_47.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_0.n_6531.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_0.n_6531.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_10.n_658.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_10.n_658.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_11.n_607.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_11.n_607.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_12.n_438.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_12.n_438.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_13.n_395.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_13.n_395.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_14.n_362.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_14.n_362.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_15.n_297.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_15.n_297.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_16.n_187.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_16.n_187.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_17.n_158.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_17.n_158.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_18.n_138.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_18.n_138.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_19.n_129.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_19.n_129.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_1.n_5082.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_1.n_5082.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_20.n_72.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_20.n_72.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_21.n_50.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_21.n_50.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_22.n_42.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_22.n_42.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_23.n_35.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_23.n_35.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_24.n_31.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_24.n_31.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_25.n_23.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_25.n_23.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_26.n_23.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_26.n_23.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_27.n_22.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_27.n_22.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_28.n_21.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_28.n_21.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_2.n_4882.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_2.n_4882.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_3.n_4644.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_3.n_4644.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_4.n_3656.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_4.n_3656.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_5.n_3411.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_5.n_3411.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_6.n_1441.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_6.n_1441.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_7.n_1388.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_7.n_1388.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_8.n_1283.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_8.n_1283.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_9.n_821.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_9.n_821.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_0.n_925.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_0.n_925.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_10.n_21.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_10.n_21.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_1.n_226.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_1.n_226.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_2.n_219.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_2.n_219.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_3.n_146.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_3.n_146.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_4.n_123.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_4.n_123.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_5.n_110.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_5.n_110.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_6.n_110.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_6.n_110.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_7.n_70.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_7.n_70.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_8.n_55.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_8.n_55.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_9.n_43.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-201-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_9.n_43.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_0.n_4104.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_0.n_4104.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_10.n_43.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_10.n_43.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_11.n_35.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_11.n_35.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_1.n_1183.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_1.n_1183.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_2.n_899.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_2.n_899.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_3.n_774.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_3.n_774.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_4.n_737.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_4.n_737.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_5.n_482.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_5.n_482.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_6.n_399.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_6.n_399.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_7.n_343.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_7.n_343.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_8.n_180.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_8.n_180.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_9.n_47.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HEK293-ENCSR673SGK.bestfold.profile.pattern_9.n_47.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_0.n_6531.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_0.n_6531.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_10.n_658.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_10.n_658.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_11.n_607.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_11.n_607.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_12.n_438.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_12.n_438.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_13.n_395.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_13.n_395.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_14.n_362.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_14.n_362.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_15.n_297.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_15.n_297.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_16.n_187.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_16.n_187.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_17.n_158.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_17.n_158.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_18.n_138.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_18.n_138.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_19.n_129.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_19.n_129.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_1.n_5082.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_1.n_5082.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_20.n_72.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_20.n_72.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_21.n_50.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_21.n_50.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_22.n_42.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_22.n_42.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_23.n_35.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_23.n_35.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_24.n_31.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_24.n_31.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_25.n_23.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_25.n_23.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_26.n_23.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_26.n_23.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_27.n_22.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_27.n_22.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_28.n_21.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_28.n_21.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_2.n_4882.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_2.n_4882.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_3.n_4644.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_3.n_4644.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_4.n_3656.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_4.n_3656.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_5.n_3411.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_5.n_3411.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_6.n_1441.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_6.n_1441.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_7.n_1388.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_7.n_1388.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_8.n_1283.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_8.n_1283.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_9.n_821.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-HepG2-ENCSR759BDG.bestfold.profile.pattern_9.n_821.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_0.n_925.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_0.n_925.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_10.n_21.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_10.n_21.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_1.n_226.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_1.n_226.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_2.n_219.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_2.n_219.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_3.n_146.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_3.n_146.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_4.n_123.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_4.n_123.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_5.n_110.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_5.n_110.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_6.n_110.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_6.n_110.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_7.n_70.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_7.n_70.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_8.n_55.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_8.n_55.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/BCL6-206/results.PFM.meme TFMoDiSCOtoMEME-files-2/BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_9.n_43.PWM.meme motif-alignments-all-vs-all/BCL6/BCL6-206-vs-BCL6-K562-ENCSR802AHH.bestfold.profile.pattern_9.n_43.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_0.n_1881.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_0.n_1881.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_10.n_197.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_10.n_197.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_11.n_186.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_11.n_186.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_12.n_157.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_12.n_157.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_13.n_126.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_13.n_126.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_14.n_119.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_14.n_119.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_15.n_87.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_15.n_87.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_16.n_67.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_16.n_67.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_17.n_66.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_17.n_66.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_18.n_50.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_18.n_50.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_19.n_45.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_19.n_45.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_1.n_1316.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_1.n_1316.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_20.n_44.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_20.n_44.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_21.n_35.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_21.n_35.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_22.n_31.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_22.n_31.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_2.n_1056.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_2.n_1056.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_3.n_697.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_3.n_697.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_4.n_642.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_4.n_642.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_5.n_551.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_5.n_551.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_6.n_498.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_6.n_498.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_7.n_496.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_7.n_496.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_8.n_237.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_8.n_237.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_9.n_222.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-HepG2-ENCSR697WMX.bestfold.profile.pattern_9.n_222.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_0.n_990.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_0.n_990.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_10.n_48.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_10.n_48.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_11.n_42.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_11.n_42.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_12.n_40.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_12.n_40.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_13.n_38.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_13.n_38.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_14.n_20.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_14.n_20.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_1.n_317.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_1.n_317.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_2.n_290.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_2.n_290.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_3.n_180.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_3.n_180.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_4.n_165.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_4.n_165.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_5.n_157.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_5.n_157.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_6.n_107.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_6.n_107.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_7.n_101.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_7.n_101.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_8.n_69.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_8.n_69.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/HIVEP1-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_9.n_50.PWM.meme motif-alignments-all-vs-all/HIVEP1/HIVEP1-201-vs-HIVEP1-K562-ENCSR947PJZ.bestfold.profile.pattern_9.n_50.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_0.n_94.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_0.n_94.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_1.n_57.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_1.n_57.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_2.n_36.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_2.n_36.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_3.n_35.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_3.n_35.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_4.n_34.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_4.n_34.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_5.n_31.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_5.n_31.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_6.n_24.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_6.n_24.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_0.n_1810.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_0.n_1810.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_10.n_911.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_10.n_911.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_11.n_902.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_11.n_902.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_12.n_900.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_12.n_900.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_13.n_883.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_13.n_883.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_14.n_855.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_14.n_855.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_15.n_839.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_15.n_839.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_16.n_795.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_16.n_795.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_17.n_786.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_17.n_786.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_18.n_766.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_18.n_766.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_19.n_709.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_19.n_709.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_1.n_1484.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_1.n_1484.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_20.n_673.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_20.n_673.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_21.n_613.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_21.n_613.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_22.n_598.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_22.n_598.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_23.n_594.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_23.n_594.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_24.n_579.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_24.n_579.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_25.n_573.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_25.n_573.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_26.n_545.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_26.n_545.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_27.n_536.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_27.n_536.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_28.n_519.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_28.n_519.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_29.n_517.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_29.n_517.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_2.n_1422.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_2.n_1422.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_30.n_488.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_30.n_488.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_31.n_485.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_31.n_485.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_32.n_479.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_32.n_479.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_33.n_479.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_33.n_479.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_34.n_457.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_34.n_457.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_35.n_454.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_35.n_454.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_36.n_439.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_36.n_439.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_37.n_424.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_37.n_424.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_38.n_406.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_38.n_406.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_39.n_393.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_39.n_393.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_3.n_1136.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_3.n_1136.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_40.n_381.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_40.n_381.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_41.n_366.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_41.n_366.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_42.n_307.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_42.n_307.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_43.n_300.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_43.n_300.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_44.n_278.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_44.n_278.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_45.n_266.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_45.n_266.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_46.n_231.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_46.n_231.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_47.n_219.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_47.n_219.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_4.n_1065.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_4.n_1065.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_5.n_992.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_5.n_992.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_6.n_977.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_6.n_977.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_7.n_959.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_7.n_959.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_8.n_941.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_8.n_941.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-201/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_9.n_924.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-201-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_9.n_924.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_0.n_94.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_0.n_94.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_1.n_57.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_1.n_57.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_2.n_36.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_2.n_36.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_3.n_35.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_3.n_35.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_4.n_34.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_4.n_34.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_5.n_31.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_5.n_31.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_6.n_24.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_6.n_24.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_0.n_1810.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_0.n_1810.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_10.n_911.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_10.n_911.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_11.n_902.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_11.n_902.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_12.n_900.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_12.n_900.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_13.n_883.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_13.n_883.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_14.n_855.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_14.n_855.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_15.n_839.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_15.n_839.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_16.n_795.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_16.n_795.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_17.n_786.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_17.n_786.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_18.n_766.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_18.n_766.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_19.n_709.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_19.n_709.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_1.n_1484.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_1.n_1484.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_20.n_673.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_20.n_673.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_21.n_613.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_21.n_613.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_22.n_598.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_22.n_598.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_23.n_594.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_23.n_594.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_24.n_579.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_24.n_579.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_25.n_573.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_25.n_573.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_26.n_545.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_26.n_545.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_27.n_536.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_27.n_536.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_28.n_519.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_28.n_519.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_29.n_517.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_29.n_517.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_2.n_1422.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_2.n_1422.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_30.n_488.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_30.n_488.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_31.n_485.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_31.n_485.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_32.n_479.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_32.n_479.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_33.n_479.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_33.n_479.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_34.n_457.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_34.n_457.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_35.n_454.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_35.n_454.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_36.n_439.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_36.n_439.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_37.n_424.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_37.n_424.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_38.n_406.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_38.n_406.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_39.n_393.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_39.n_393.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_3.n_1136.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_3.n_1136.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_40.n_381.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_40.n_381.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_41.n_366.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_41.n_366.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_42.n_307.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_42.n_307.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_43.n_300.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_43.n_300.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_44.n_278.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_44.n_278.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_45.n_266.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_45.n_266.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_46.n_231.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_46.n_231.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_47.n_219.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_47.n_219.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_4.n_1065.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_4.n_1065.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_5.n_992.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_5.n_992.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_6.n_977.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_6.n_977.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_7.n_959.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_7.n_959.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_8.n_941.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_8.n_941.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-202/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_9.n_924.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-202-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_9.n_924.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_0.n_94.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_0.n_94.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_1.n_57.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_1.n_57.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_2.n_36.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_2.n_36.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_3.n_35.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_3.n_35.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_4.n_34.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_4.n_34.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_5.n_31.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_5.n_31.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_6.n_24.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_6.n_24.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_0.n_1810.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_0.n_1810.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_10.n_911.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_10.n_911.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_11.n_902.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_11.n_902.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_12.n_900.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_12.n_900.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_13.n_883.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_13.n_883.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_14.n_855.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_14.n_855.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_15.n_839.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_15.n_839.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_16.n_795.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_16.n_795.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_17.n_786.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_17.n_786.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_18.n_766.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_18.n_766.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_19.n_709.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_19.n_709.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_1.n_1484.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_1.n_1484.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_20.n_673.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_20.n_673.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_21.n_613.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_21.n_613.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_22.n_598.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_22.n_598.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_23.n_594.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_23.n_594.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_24.n_579.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_24.n_579.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_25.n_573.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_25.n_573.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_26.n_545.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_26.n_545.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_27.n_536.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_27.n_536.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_28.n_519.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_28.n_519.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_29.n_517.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_29.n_517.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_2.n_1422.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_2.n_1422.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_30.n_488.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_30.n_488.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_31.n_485.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_31.n_485.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_32.n_479.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_32.n_479.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_33.n_479.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_33.n_479.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_34.n_457.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_34.n_457.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_35.n_454.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_35.n_454.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_36.n_439.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_36.n_439.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_37.n_424.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_37.n_424.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_38.n_406.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_38.n_406.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_39.n_393.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_39.n_393.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_3.n_1136.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_3.n_1136.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_40.n_381.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_40.n_381.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_41.n_366.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_41.n_366.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_42.n_307.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_42.n_307.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_43.n_300.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_43.n_300.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_44.n_278.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_44.n_278.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_45.n_266.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_45.n_266.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_46.n_231.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_46.n_231.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_47.n_219.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_47.n_219.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_4.n_1065.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_4.n_1065.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_5.n_992.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_5.n_992.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_6.n_977.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_6.n_977.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_7.n_959.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_7.n_959.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_8.n_941.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_8.n_941.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-203/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_9.n_924.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-203-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_9.n_924.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_0.n_94.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_0.n_94.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_1.n_57.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_1.n_57.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_2.n_36.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_2.n_36.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_3.n_35.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_3.n_35.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_4.n_34.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_4.n_34.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_5.n_31.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_5.n_31.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_6.n_24.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_6.n_24.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_0.n_1810.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_0.n_1810.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_10.n_911.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_10.n_911.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_11.n_902.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_11.n_902.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_12.n_900.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_12.n_900.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_13.n_883.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_13.n_883.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_14.n_855.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_14.n_855.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_15.n_839.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_15.n_839.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_16.n_795.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_16.n_795.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_17.n_786.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_17.n_786.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_18.n_766.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_18.n_766.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_19.n_709.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_19.n_709.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_1.n_1484.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_1.n_1484.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_20.n_673.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_20.n_673.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_21.n_613.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_21.n_613.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_22.n_598.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_22.n_598.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_23.n_594.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_23.n_594.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_24.n_579.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_24.n_579.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_25.n_573.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_25.n_573.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_26.n_545.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_26.n_545.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_27.n_536.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_27.n_536.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_28.n_519.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_28.n_519.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_29.n_517.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_29.n_517.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_2.n_1422.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_2.n_1422.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_30.n_488.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_30.n_488.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_31.n_485.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_31.n_485.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_32.n_479.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_32.n_479.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_33.n_479.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_33.n_479.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_34.n_457.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_34.n_457.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_35.n_454.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_35.n_454.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_36.n_439.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_36.n_439.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_37.n_424.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_37.n_424.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_38.n_406.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_38.n_406.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_39.n_393.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_39.n_393.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_3.n_1136.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_3.n_1136.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_40.n_381.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_40.n_381.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_41.n_366.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_41.n_366.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_42.n_307.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_42.n_307.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_43.n_300.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_43.n_300.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_44.n_278.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_44.n_278.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_45.n_266.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_45.n_266.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_46.n_231.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_46.n_231.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_47.n_219.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_47.n_219.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_4.n_1065.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_4.n_1065.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_5.n_992.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_5.n_992.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_6.n_977.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_6.n_977.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_7.n_959.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_7.n_959.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_8.n_941.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_8.n_941.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-204/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_9.n_924.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-204-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_9.n_924.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_0.n_94.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_0.n_94.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_1.n_57.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_1.n_57.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_2.n_36.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_2.n_36.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_3.n_35.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_3.n_35.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_4.n_34.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_4.n_34.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_5.n_31.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_5.n_31.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_6.n_24.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_6.n_24.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_0.n_1810.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_0.n_1810.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_10.n_911.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_10.n_911.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_11.n_902.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_11.n_902.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_12.n_900.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_12.n_900.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_13.n_883.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_13.n_883.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_14.n_855.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_14.n_855.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_15.n_839.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_15.n_839.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_16.n_795.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_16.n_795.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_17.n_786.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_17.n_786.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_18.n_766.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_18.n_766.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_19.n_709.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_19.n_709.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_1.n_1484.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_1.n_1484.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_20.n_673.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_20.n_673.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_21.n_613.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_21.n_613.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_22.n_598.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_22.n_598.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_23.n_594.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_23.n_594.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_24.n_579.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_24.n_579.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_25.n_573.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_25.n_573.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_26.n_545.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_26.n_545.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_27.n_536.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_27.n_536.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_28.n_519.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_28.n_519.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_29.n_517.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_29.n_517.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_2.n_1422.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_2.n_1422.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_30.n_488.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_30.n_488.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_31.n_485.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_31.n_485.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_32.n_479.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_32.n_479.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_33.n_479.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_33.n_479.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_34.n_457.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_34.n_457.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_35.n_454.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_35.n_454.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_36.n_439.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_36.n_439.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_37.n_424.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_37.n_424.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_38.n_406.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_38.n_406.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_39.n_393.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_39.n_393.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_3.n_1136.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_3.n_1136.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_40.n_381.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_40.n_381.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_41.n_366.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_41.n_366.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_42.n_307.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_42.n_307.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_43.n_300.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_43.n_300.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_44.n_278.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_44.n_278.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_45.n_266.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_45.n_266.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_46.n_231.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_46.n_231.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_47.n_219.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_47.n_219.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_4.n_1065.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_4.n_1065.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_5.n_992.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_5.n_992.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_6.n_977.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_6.n_977.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_7.n_959.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_7.n_959.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_8.n_941.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_8.n_941.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-207/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_9.n_924.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-207-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_9.n_924.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_0.n_94.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_0.n_94.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_1.n_57.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_1.n_57.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_2.n_36.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_2.n_36.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_3.n_35.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_3.n_35.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_4.n_34.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_4.n_34.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_5.n_31.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_5.n_31.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_6.n_24.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_6.n_24.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_0.n_1810.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_0.n_1810.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_10.n_911.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_10.n_911.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_11.n_902.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_11.n_902.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_12.n_900.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_12.n_900.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_13.n_883.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_13.n_883.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_14.n_855.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_14.n_855.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_15.n_839.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_15.n_839.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_16.n_795.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_16.n_795.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_17.n_786.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_17.n_786.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_18.n_766.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_18.n_766.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_19.n_709.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_19.n_709.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_1.n_1484.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_1.n_1484.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_20.n_673.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_20.n_673.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_21.n_613.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_21.n_613.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_22.n_598.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_22.n_598.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_23.n_594.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_23.n_594.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_24.n_579.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_24.n_579.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_25.n_573.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_25.n_573.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_26.n_545.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_26.n_545.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_27.n_536.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_27.n_536.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_28.n_519.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_28.n_519.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_29.n_517.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_29.n_517.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_2.n_1422.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_2.n_1422.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_30.n_488.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_30.n_488.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_31.n_485.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_31.n_485.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_32.n_479.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_32.n_479.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_33.n_479.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_33.n_479.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_34.n_457.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_34.n_457.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_35.n_454.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_35.n_454.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_36.n_439.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_36.n_439.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_37.n_424.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_37.n_424.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_38.n_406.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_38.n_406.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_39.n_393.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_39.n_393.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_3.n_1136.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_3.n_1136.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_40.n_381.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_40.n_381.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_41.n_366.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_41.n_366.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_42.n_307.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_42.n_307.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_43.n_300.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_43.n_300.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_44.n_278.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_44.n_278.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_45.n_266.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_45.n_266.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_46.n_231.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_46.n_231.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_47.n_219.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_47.n_219.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_4.n_1065.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_4.n_1065.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_5.n_992.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_5.n_992.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_6.n_977.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_6.n_977.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_7.n_959.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_7.n_959.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_8.n_941.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_8.n_941.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-211/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_9.n_924.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-211-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_9.n_924.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_0.n_94.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_0.n_94.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_1.n_57.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_1.n_57.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_2.n_36.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_2.n_36.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_3.n_35.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_3.n_35.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_4.n_34.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_4.n_34.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_5.n_31.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_5.n_31.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_6.n_24.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK293-Hughes_NB_models_CTCF.bestfold.profile.pattern_6.n_24.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_0.n_1810.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_0.n_1810.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_10.n_911.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_10.n_911.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_11.n_902.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_11.n_902.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_12.n_900.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_12.n_900.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_13.n_883.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_13.n_883.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_14.n_855.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_14.n_855.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_15.n_839.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_15.n_839.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_16.n_795.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_16.n_795.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_17.n_786.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_17.n_786.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_18.n_766.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_18.n_766.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_19.n_709.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_19.n_709.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_1.n_1484.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_1.n_1484.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_20.n_673.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_20.n_673.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_21.n_613.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_21.n_613.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_22.n_598.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_22.n_598.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_23.n_594.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_23.n_594.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_24.n_579.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_24.n_579.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_25.n_573.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_25.n_573.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_26.n_545.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_26.n_545.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_27.n_536.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_27.n_536.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_28.n_519.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_28.n_519.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_29.n_517.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_29.n_517.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_2.n_1422.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_2.n_1422.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_30.n_488.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_30.n_488.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_31.n_485.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_31.n_485.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_32.n_479.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_32.n_479.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_33.n_479.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_33.n_479.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_34.n_457.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_34.n_457.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_35.n_454.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_35.n_454.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_36.n_439.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_36.n_439.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_37.n_424.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_37.n_424.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_38.n_406.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_38.n_406.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_39.n_393.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_39.n_393.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_3.n_1136.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_3.n_1136.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_40.n_381.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_40.n_381.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_41.n_366.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_41.n_366.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_42.n_307.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_42.n_307.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_43.n_300.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_43.n_300.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_44.n_278.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_44.n_278.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_45.n_266.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_45.n_266.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_46.n_231.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_46.n_231.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_47.n_219.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_47.n_219.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_4.n_1065.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_4.n_1065.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_5.n_992.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_5.n_992.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_6.n_977.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_6.n_977.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_7.n_959.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_7.n_959.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_8.n_941.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_8.n_941.PWM.trim_0.5 -bits -trimMOT2 0.5 & 
python /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/motif-alignment.py /oak/stanford/groups/akundaje/marinovg/papers/2023_ZNFs/2023-09-01-final-figures/gencode.v29/CTCF-216/results.PFM.meme TFMoDiSCOtoMEME-files-2/CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_9.n_924.PWM.meme motif-alignments-all-vs-all/CTCF/CTCF-216-vs-CTCF-HEK294-Hughes_GR_models_CTCF.bestfold.profile.pattern_9.n_924.PWM.trim_0.5 -bits -trimMOT2 0.5 &