module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Ciliates/Paramecium_biaurelia_V1-4/Paramecium_biaurelia_V1-4.biaurelia_V1-4_annotation_v1.ORF.PFAM27-A --tblout /N/dc2/projects/marinovg/genomes/Ciliates/Paramecium_biaurelia_V1-4/Paramecium_biaurelia_V1-4.biaurelia_V1-4_annotation_v1.ORF.PFAM27-A.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Ciliates/Paramecium_biaurelia_V1-4/Paramecium_biaurelia_V1-4.biaurelia_V1-4_annotation_v1.ORF.fa
module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Ciliates/Paramecium_caudatum_43c3d/Paramecium_caudatum_43c3d.caudatum_43c3d_annotation_v1.ORF.PFAM27-A --tblout /N/dc2/projects/marinovg/genomes/Ciliates/Paramecium_caudatum_43c3d/Paramecium_caudatum_43c3d.caudatum_43c3d_annotation_v1.ORF.PFAM27-A.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Ciliates/Paramecium_caudatum_43c3d/Paramecium_caudatum_43c3d.caudatum_43c3d_annotation_v1.ORF.fa
module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Ciliates/Paramecium_multimicronucleatum_MO3c4/Paramecium_multimicronucleatum_MO3c4.multimicronucleatum_MO3c4_annotation_v1.ORF.PFAM27-A --tblout /N/dc2/projects/marinovg/genomes/Ciliates/Paramecium_multimicronucleatum_MO3c4/Paramecium_multimicronucleatum_MO3c4.multimicronucleatum_MO3c4_annotation_v1.ORF.PFAM27-A.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Ciliates/Paramecium_multimicronucleatum_MO3c4/Paramecium_multimicronucleatum_MO3c4.multimicronucleatum_MO3c4_annotation_v1.ORF.fa
module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Ciliates/Paramecium_primaurelia_Ir4-2/Paramecium_primaurelia_Ir4-2.primaurelia_Ir4-2_annotation_v1.ORF.PFAM27-A --tblout /N/dc2/projects/marinovg/genomes/Ciliates/Paramecium_primaurelia_Ir4-2/Paramecium_primaurelia_Ir4-2.primaurelia_Ir4-2_annotation_v1.ORF.PFAM27-A.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Ciliates/Paramecium_primaurelia_Ir4-2/Paramecium_primaurelia_Ir4-2.primaurelia_Ir4-2_annotation_v1.ORF.fa
module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Ciliates/Paramecium_sexaurelia_AZ8-4/Paramecium_sexaurelia_AZ8-4.sexaurelia_AZ8-4_annotation_v1.ORF.PFAM27-A --tblout /N/dc2/projects/marinovg/genomes/Ciliates/Paramecium_sexaurelia_AZ8-4/Paramecium_sexaurelia_AZ8-4.sexaurelia_AZ8-4_annotation_v1.ORF.PFAM27-A.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Ciliates/Paramecium_sexaurelia_AZ8-4/Paramecium_sexaurelia_AZ8-4.sexaurelia_AZ8-4_annotation_v1.ORF.fa
module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Ciliates/Paramecium_tetraurelia.GCA_000165425/Paramecium_tetraurelia.GCA_000165425.Paramecium_tetraurelia.GCA_000165425.1.20.ORF.PFAM27-A --tblout /N/dc2/projects/marinovg/genomes/Ciliates/Paramecium_tetraurelia.GCA_000165425/Paramecium_tetraurelia.GCA_000165425.Paramecium_tetraurelia.GCA_000165425.1.20.ORF.PFAM27-A.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Ciliates/Paramecium_tetraurelia.GCA_000165425/Paramecium_tetraurelia.GCA_000165425.Paramecium_tetraurelia.GCA_000165425.1.20.ORF.fa
module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Ciliates/Tetrahymena_thermophila/Tetrahymena_thermophila.JCVI-TTA1-2.2.20.protein_coding.ORF.PFAM27-A --tblout /N/dc2/projects/marinovg/genomes/Ciliates/Tetrahymena_thermophila/Tetrahymena_thermophila.JCVI-TTA1-2.2.20.protein_coding.ORF.PFAM27-A.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Ciliates/Tetrahymena_thermophila/Tetrahymena_thermophila.JCVI-TTA1-2.2.20.protein_coding.ORF.fa
module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Ciliates/Stylonychia_lemnae_asm_v1.0/Stylonychia_lemnae_asm_v1.0_genomic.ORF.PFAM27-A --tblout /N/dc2/projects/marinovg/genomes/Ciliates/Stylonychia_lemnae_asm_v1.0/Stylonychia_lemnae_asm_v1.0_genomic.ORF.PFAM27-A.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Ciliates/Stylonychia_lemnae_asm_v1.0/Stylonychia_lemnae_asm_v1.0_genomic.ORF.fa
module load hmmer/3.0; hmmscan --cpu 16 -o /N/dc2/projects/marinovg/genomes/Ciliates/Oxytricha_trifallax_asm_v1.1/Oxytricha_trifallax_asm_v1.1.ORF.PFAM27-A --tblout /N/dc2/projects/marinovg/genomes/Ciliates/Oxytricha_trifallax_asm_v1.1/Oxytricha_trifallax_asm_v1.1.ORF.PFAM27-A.tblout /N/dc2/projects/marinovg/genomes/PFam/PFam27.0/Pfam-A.hmm /N/dc2/projects/marinovg/genomes/Ciliates/Oxytricha_trifallax_asm_v1.1/Oxytricha_trifallax_asm_v1.1.ORF.fa